Package: med-bio (3.3)

Links for med-bio

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Download Source Package debian-med:

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Debian Med 생물정보학 패키지

이 메타패키지는 분자 생물학, 구조 생물학 및 기타 생물학에서 사용하기 위한 Debian 패키지를 설치할 것 입니다.

Tags: Field: Biology, Role: Metapackage, Application Suite: Debian

Other Packages Related to med-bio

depends

recommends

suggests

enhances

dep: med-config (= 3.3)

Debian Med 일반 구성 패키지
dep: med-tasks (= 3.3)

Debian Med tasks for tasksel

rec: abacas

close gaps in genomic alignments from short reads
rec: abyss

짧은 읽기를 위한 de novo, 병렬, 시퀀스 어셈블러
rec: acedb-other

retrieval of DNA or protein sequences
rec: adapterremoval

rapid adapter trimming, identification, and read merging of gene sequences
rec: adun-core

Molecular Simulator
rec: aegean

integrated genome analysis toolkit
rec: aevol

실리코에서 진화 실험을 실행하는 디지탈 유전학 모델
rec: alien-hunter

Interpolated Variable Order Motifs to identify horizontally acquired DNA
rec: alter-sequence-alignment

genomic sequences ALignment Transformation EnviRonment
rec: altree

program to perform phylogeny-based association and localization analysis
rec: amap-align

Protein multiple alignment by sequence annealing
rec: ampliconnoise

454 시퀀싱 PCR 앰플리콘의 노이즈 제거
rec: andi

Efficient Estimation of Evolutionary Distances
rec: anfo

MPG의 단편 서열 정렬기/매퍼
rec: aragorn

tRNA and tmRNA detection in nucleotide sequences
rec: arden

specificity control for read alignments using an artificial reference
rec: ariba

Antibiotic Resistance Identification By Assembly
rec: art-nextgen-simulation-tools

simulation tools to generate synthetic next-generation sequencing reads
rec: artemis

genome browser and annotation tool
rec: artfastqgenerator

outputs artificial FASTQ files derived from a reference genome
rec: assemblytics

detect and analyze structural variants from a genome assembly
rec: atac

genome assembly-to-assembly comparison
rec: augustus

진핵생물 게놈의 유전자 예측
rec: autodock

analysis of ligand binding to protein structure
rec: autodock-vina

docking of small molecules to proteins
rec: autogrid

리간드와 수용체 결합을 미리 계산
rec: avogadro

분자 그래픽 및 모델링 시스템
rec: axe-demultiplexer

Trie-based DNA sequencing read demultiplexer
rec: baitfisher

software package for designing hybrid enrichment probes
rec: bali-phy

Bayesian Inference of Alignment and Phylogeny
rec: ballview

자유 분자 모델링 및 분자 그래픽 도구
rec: bamtools

BAM (게놈 정렬) 파일을 조작하기 위한 툴킷
rec: bandage

Bioinformatics Application for Navigating De novo Assembly Graphs Easily
rec: barrnap

rapid ribosomal RNA prediction
rec: bcbio

toolkit for analysing high-throughput sequencing data
rec: bcftools

VCF/BCF 파일들의 게놈 변형 호출 및 조작
rec: beads

2-DE electrophoresis gel image spot detection
rec: beagle

Genotype calling, genotype phasing and imputation of ungenotyped markers
rec: beast-mcmc

Bayesian MCMC phylogenetic inference
rec: beast2-mcmc

Bayesian MCMC phylogenetic inference
rec: bedops

high-performance genomic feature operations
rec: bedtools

suite of utilities for comparing genomic features
rec: belvu

multiple sequence alignment viewer and phylogenetic tool
rec: berkeley-express

Streaming quantification for high-throughput sequencing
rec: bio-eagle

유전형 코호트 내에서 또는 단계별 참조 패널을 사용하여 하플로타입 단계화
rec: bio-rainbow

clustering and assembling short reads for bioinformatics
rec: bio-tradis

analyse the output from TraDIS analyses of genomic sequences
rec: biosyntax

Syntax Highlighting for Computational Biology (metapackage)
rec: bitseq

Bayesian Inference of Transcripts from Sequencing Data
rec: blasr

mapping single-molecule sequencing reads
rec: blixem

interactive browser of sequence alignments
rec: bolt-lmm

Efficient large cohorts genome-wide Bayesian mixed-model association testing
rec: bowtie

초고속 메모리 효율적인 짧은 읽기 정렬기
rec: bowtie2

ultrafast memory-efficient short read aligner
rec: boxshade

Pretty-printing of multiple sequence alignments
rec: bppphyview

Bio 계통학 뷰어
rec: bppsuite

Bio program suite
rec: brig

BLAST Ring Image Generator
rec: bwa

Burrows-Wheeler Aligner
rec: canu

single molecule sequence assembler for genomes
rec: cassiopee

index and search tool in genomic sequences
rec: cct

visually comparing bacterial, plasmid, chloroplast, or mitochondrial sequences
rec: cd-hit

suite of programs designed to quickly group sequences
rec: cdbfasta

Constant DataBase indexing and retrieval tools for multi-FASTA files
rec: centrifuge

rapid and memory-efficient system for classification of DNA sequences
rec: cgview

Circular Genome Viewer
rec: changeo

Repertoire clonal assignment toolkit (Python 3)
rec: chimeraslayer

detects likely chimeras in PCR amplified DNA
rec: chromhmm

Chromatin state discovery and characterization
rec: chromimpute

Large-scale systematic epigenome imputation
rec: circlator

circularize genome assemblies
rec: circos

데이타를 시각화하는 플로터
rec: clearcut

extremely efficient phylogenetic tree reconstruction
rec: clonalframe

multilocus 시퀀스 데이터를 사용하여 세균 소진화 추론
rec: clonalframeml

Efficient Inference of Recombination in Whole Bacterial Genomes
rec: clonalorigin

inference of homologous recombination in bacteria using whole genome sequences
rec: clustalo

General purpose multiple sequence alignment program for proteins
rec: clustalw

global multiple nucleotide or peptide sequence alignment
rec: clustalx

Multiple alignment of nucleic acid and protein sequences (graphical interface)
rec: cnvkit

Copy number variant detection from targeted DNA sequencing
rec: codonw

Correspondence Analysis of Codon Usage
rec: concavity

predictor of protein ligand binding sites from structure and conservation
rec: conservation-code

protein sequence conservation scoring tool
rec: crac

integrated RNA-Seq read analysis
rec: csb

Computational Structural Biology Toolbox (CSB)
rec: cutadapt

Clean biological sequences from high-throughput sequencing reads
rec: daligner

긴 뉴클레오티드 염기서열 판독값 사이의 국소 정렬 검색
rec: datamash

명령행 인터페이스용 통계 도구
rec: dawg

simulate the evolution of recombinant DNA sequences
rec: dazzdb

manage nucleotide sequencing read data
rec: deepnano

alternative basecaller for MinION reads of genomic sequences
rec: delly

Structural variant discovery by read analysis
rec: dialign

Segment-based multiple sequence alignment
rec: dialign-tx

Segment-based multiple sequence alignment
rec: diamond-aligner

accelerated BLAST compatible local sequence aligner
rec: dindel

determines indel calls from short-read data
rec: discosnp

discovering Single Nucleotide Polymorphism from raw set(s) of reads
rec: disulfinder

시스테인 이황화 결합 상태 및 연결 예측자
rec: dnaclust

tool for clustering millions of short DNA sequences
rec: dotter

detailed comparison of two genomic sequences
rec: dssp

protein secondary structure assignment based on 3D structure
rec: dwgsim

short sequencing read simulator
rec: e-mem

Efficient computation of Maximal Exact Matches for very large genomes
rec: ea-utils

command-line tools for processing biological sequencing data
rec: ecopcr

estimate PCR barcode primers quality
rec: edtsurf

triangulated mesh surfaces for protein structures
rec: eigensoft

reduction of population bias for genetic analyses
rec: elph

DNA/protein sequence motif finder
rec: embassy-domainatrix

Extra EMBOSS commands to handle domain classification file
rec: embassy-domalign

Extra EMBOSS commands for protein domain alignment
rec: embassy-domsearch

Extra EMBOSS commands to search for protein domains
rec: emboss

European molecular biology open software suite
rec: estscan

ORF-independent detector of coding DNA sequences
rec: examl

Exascale Maximum Likelihood (ExaML) code for phylogenetic inference
rec: exonerate

generic tool for pairwise sequence comparison
rec: fastahack

utility for indexing and sequence extraction from FASTA files
rec: fastaq

FASTA and FASTQ file manipulation tools
rec: fastdnaml

Tool for construction of phylogenetic trees of DNA sequences
rec: fastlink

기존의 Linkage 보다 더 빠른 버젼
rec: fastml

maximum likelihood ancestral amino-acid sequence reconstruction
rec: fastp

Ultra-fast all-in-one FASTQ preprocessor
rec: fastqc

높은 처리량 시퀀스 데이타를 위한 품질 관리
rec: fastqtl

Quantitative Trait Loci (QTL) mapper in cis for molecular phenotypes
rec: fasttree

phylogenetic trees from alignments of nucleotide or protein sequences
rec: fastx-toolkit

FASTQ/Q 짧은 뉴클리오티드 판독 전처리 도구
rec: ffindex

simple index/database for huge amounts of small files
rec: figtree

graphical phylogenetic tree viewer
rec: fitgcp

fitting genome coverage distributions with mixture models
rec: flexbar

flexible barcode and adapter removal for sequencing platforms
rec: fml-asm

tool for assembling Illumina short reads in small regions
rec: freebayes

Bayesian haplotype-based polymorphism discovery and genotyping
rec: freecontact

fast protein contact predictor
rec: fsa

Fast Statistical Alignment of protein, RNA or DNA sequences
rec: fsm-lite

frequency-based string mining (lite)
rec: gamgi

General Atomistic Modelling Graphic Interface (GAMGI)
rec: garli

phylogenetic analysis of molecular sequence data using maximum-likelihood
rec: garlic

visualization program for biomolecules
rec: gasic

genome abundance similarity correction
rec: gatb-core

Genome Analysis Toolbox with de-Bruijn graph
rec: gbrowse

GMOD Generic Genome Browser
rec: gdpc

visualiser of molecular dynamic simulations
rec: gemma

Genome-wide Efficient Mixed Model Association
rec: genometester

toolkit for performing set operations on k-mer lists
rec: genometools

versatile genome analysis toolkit
rec: gentle

suite to plan genetic cloning
rec: gff2aplot

pair-wise alignment-plots for genomic sequences in PostScript
rec: gff2ps

produces PostScript graphical output from GFF-files
rec: ghemical

그놈 분자 모델링 환경
rec: ghmm

General Hidden-Markov-Model library - tools
rec: giira

RNA-Seq driven gene finding incorporating ambiguous reads
rec: glam2

gapped protein motifs from unaligned sequences
rec: grabix

wee tool for random access into BGZF files
rec: graphlan

circular representations of taxonomic and phylogenetic trees
rec: grinder

Versatile omics shotgun and amplicon sequencing read simulator
rec: gromacs

Molecular dynamics simulator, with building and analysis tools
rec: gubbins

phylogenetic analysis of genome sequences
rec: gwama

Genome-Wide Association Meta Analysis
rec: harvest-tools

archiving and postprocessing for reference-compressed genomic multi-alignments
rec: hhsuite

sensitive protein sequence searching based on HMM-HMM alignment
rec: hilive

realtime alignment of Illumina reads
rec: hinge

long read genome assembler based on hinging
rec: hisat2

graph-based alignment of short nucleotide reads to many genomes
rec: hmmer

profile hidden Markov models for protein sequence analysis
rec: hmmer2

profile hidden Markov models for protein sequence analysis
rec: hyphy-mpi

Hypothesis testing using Phylogenies (MPI version)

or hyphy-pt

Hypothesis testing using Phylogenies (pthreads version)
rec: idba

iterative De Bruijn Graph short read assemblers
rec: igor

infers V(D)J recombination processes from sequencing data
rec: indelible

powerful and flexible simulator of biological evolution
rec: infernal

inference of RNA secondary structural alignments
rec: ipig

integrating PSMs into genome browser visualisations
rec: iqtree

efficient phylogenetic software by maximum likelihood
rec: iva

반복적인 바이러스 시퀀스 어셈블러
rec: jaligner

Smith-Waterman algorithm with Gotoh's improvement
rec: jellyfish

count k-mers in DNA sequences
rec: jellyfish1

count k-mers in DNA sequences
rec: jmodeltest

HPC selection of models of nucleotide substitution
rec: jmol

분자 뷰어
rec: kalign

Global and progressive multiple sequence alignment
rec: khmer

in-memory DNA sequence kmer counting, filtering & graph traversal
rec: kineticstools

detection of DNA modifications
rec: king-probe

Evaluate and visualize protein interatomic packing
rec: kissplice

Detection of various kinds of polymorphisms in RNA-seq data
rec: kmc

count kmers in genomic sequences
rec: kmer

suite of tools for DNA sequence analysis
rec: kraken

assigning taxonomic labels to short DNA sequences
rec: lagan

highly parametrizable pairwise global genome sequence aligner
rec: lamarc

Likelihood Analysis with Metropolis Algorithm using Random Coalescence
rec: lambda-align

Local Aligner for Massive Biological DatA
rec: lambda-align2

Local Aligner for Massive Biological DatA - v2
rec: last-align

genome-scale comparison of biological sequences
rec: leaff

biological sequence library utilities and applications
rec: lefse

determine features of organisms, clades, taxonomic units, genes
rec: librg-utils-perl

parsers and format conversion utilities used by (e.g.) profphd
rec: libvcflib-tools

C library for parsing and manipulating VCF files (tools)
rec: logol

Pattern matching tool using Logol language
rec: loki

MCMC linkage analysis on general pedigrees
rec: ltrsift

postprocessing and classification of LTR retrotransposons
rec: lucy

DNA sequence quality and vector trimming tool
rec: macs

Model-based Analysis of ChIP-Seq on short reads sequencers
rec: macsyfinder

detection of macromolecular systems in protein datasets
rec: maffilter

process genome alignment in the Multiple Alignment Format
rec: mafft

Multiple alignment program for amino acid or nucleotide sequences
rec: mapdamage

tracking and quantifying damage patterns in ancient DNA sequences
rec: mapsembler2

bioinformatics targeted assembly software
rec: maq

maps short fixed-length polymorphic DNA sequence reads to reference sequences
rec: maqview

graphical read alignment viewer for short gene sequences
rec: mash

fast genome and metagenome distance estimation using MinHash
rec: mauve-aligner

multiple genome alignment
rec: melting

핵산 듀플렉스의 용해 온도 계산
rec: meryl

in- and out-of-core kmer counting and utilities
rec: metaphlan2

Metagenomic Phylogenetic Analysis
rec: metastudent

predictor of Gene Ontology terms from protein sequence
rec: mhap

locality-sensitive hashing to detect long-read overlaps
rec: microbegps

explorative taxonomic profiling tool for metagenomic data
rec: microbiomeutil

Microbiome Analysis Utilities
rec: minia

short-read biological sequence assembler
rec: miniasm

ultrafast de novo assembler for long noisy DNA sequencing reads
rec: minimac4

Fast Imputation Based on State Space Reduction HMM
rec: minimap

DNA 판독과 같은 긴 생체 서열의 대략적 매핑을 위한 도구
rec: minimap2

versatile pairwise aligner for genomic and spliced nucleotide sequences
rec: mipe

PCR 파생 데이타 저장 도구
rec: mira-assembler

전체 게놈 샷건 및 EST 시퀀스 어셈블러
rec: mlv-smile

Find statistically significant patterns in sequences
rec: mothur

미생물학 연구를 위한 서열 분석 모음
rec: mptp

single-locus species delimitation
rec: mrbayes

Bayesian Inference of Phylogeny
rec: mummer

Efficient sequence alignment of full genomes
rec: murasaki

homology detection tool across multiple large genomes

or murasaki-mpi

homology detection tool across multiple large genomes (MPI-version)
rec: muscle

Multiple alignment program of protein sequences
rec: mustang

multiple structural alignment of proteins
rec: nanook

pre- and post-alignment analysis of nanopore sequencing data
rec: nanopolish

consensus caller for nanopore sequencing data
rec: nast-ier

NAST-based DNA alignment tool
rec: ncbi-blast

next generation suite of BLAST sequence search tools
rec: ncbi-blast -legacy

NCBI Blast legacy call script
rec: ncbi-entrez-direct

NCBI Entrez utilities on the command line
rec: ncbi-epcr

Tool to test a DNA sequence for the presence of sequence tagged sites
rec: ncbi-seg

tool to mask segments of low compositional complexity in amino acid sequences
rec: ncbi-tools-bin

NCBI libraries for biology applications (text-based utilities)
rec: ncbi-tools-x11

NCBI libraries for biology applications (X-based utilities)
rec: ncl-tools

tools to deal with NEXUS files
rec: ncoils

coiled coil secondary structure prediction
rec: neobio

computes alignments of amino acid and nucleotide sequences
rec: njplot

phylogenetic tree drawing program
rec: norsnet

tool to identify unstructured loops in proteins
rec: norsp

predictor of non-regular secondary structure
rec: obitools

programs to analyze NGS data in a DNA metabarcoding context
rec: openms

package for LC/MS data management and analysis
rec: pal2nal

converts proteins to genomic DNA alignment
rec: paleomix

pipelines and tools for the processing of ancient and modern HTS data
rec: paml

최대공산에 의한 계통 발생 분석 (PAML)
rec: paraclu

Parametric clustering of genomic and transcriptomic features
rec: parsinsert

Parsimonious Insertion of unclassified sequences into phylogenetic trees
rec: parsnp

rapid core genome multi-alignment
rec: patman

rapid alignment of short sequences to large databases
rec: pbalign

map Pacific Biosciences reads to reference DNA sequences
rec: pbbarcode

annotate PacBio sequencing reads with barcode information
rec: pbdagcon

sequence consensus using directed acyclic graphs
rec: pbgenomicconsensus

Pacific Biosciences variant and consensus caller
rec: pbh5tools

tools for manipulating Pacific Biosciences HDF5 files
rec: pbhoney

genomic structural variation discovery
rec: pbjelly

genome assembly upgrading tool
rec: pbsim

simulator for PacBio sequencing reads
rec: pbsuite

software for Pacific Biosciences sequencing data
rec: pdb2pqr

Preparation of protein structures for electrostatics calculations
rec: perlprimer

Graphical design of primers for PCR
rec: perm

efficient mapping of short reads with periodic spaced seeds
rec: pftools

build and search protein and DNA generalized profiles
rec: phast

phylogenetic analysis with space/time models
rec: phipack

PHI test and other tests of recombination
rec: phybin

binning/clustering newick trees by topology
rec: phylip

package of programs for inferring phylogenies
rec: phyml

Phylogenetic estimation using Maximum Likelihood
rec: physamp

sample sequence alignment corresponding to phylogeny
rec: phyutility

simple analyses or modifications on both phylogenetic trees and data matrices
rec: phyx

UNIX-style phylogenetic analyses on trees and sequences
rec: picard-tools

Command line tools to manipulate SAM and BAM files
rec: piler

genomic repeat analysis
rec: pilon

automated genome assembly improvement and variant detection tool
rec: pirs

Profile based Illumina pair-end Reads Simulator
rec: placnet

Plasmid Constellation Network project
rec: plasmidomics

draw plasmids and vector maps with PostScript graphics export
rec: plasmidseeker

identification of known plasmids from whole-genome sequencing reads
rec: plast

Parallel Local Sequence Alignment Search Tool
rec: plink

whole-genome association analysis toolset
rec: plink1.9

whole-genome association analysis toolset
rec: plip

fully automated protein-ligand interaction profiler
rec: poa

다중 서열 배치를 위한 부분 순서 배치
rec: populations

인구 유전 소프트웨어
rec: porechop

adapter trimmer for Oxford Nanopore reads
rec: poretools

toolkit for nanopore nucleotide sequencing data
rec: prank

Probabilistic Alignment Kit for DNA, codon and amino-acid sequences
rec: predictnls

prediction and analysis of protein nuclear localization signals
rec: predictprotein

suite of protein sequence analysis tools
rec: prime-phylo

bayesian estimation of gene trees taking the species tree into account
rec: primer3

tool to design flanking oligo nucleotides for DNA amplification
rec: proalign

Probabilistic multiple alignment program
rec: probabel

Toolset for Genome-Wide Association Analysis
rec: probalign

multiple sequence alignment using partition function posterior probabilities
rec: probcons

PROBabilistic CONSistency-based multiple sequence alignment
rec: proda

단백질 시퀀스의 다중 정열
rec: prodigal

Microbial (bacterial and archaeal) gene finding program
rec: profbval

predictor of flexible/rigid protein residues from sequence
rec: profisis

prediction of protein-protein interaction sites from sequence
rec: profnet-bval

neural network architecture for profbval
rec: profnet-chop

neural network architecture for profchop
rec: profnet-con

neural network architecture for profcon
rec: profnet-isis

neural network architecture for profisis
rec: profnet-md

neural network architecture for metadisorder
rec: profnet-norsnet

neural network architecture for norsnet
rec: profnet-prof

neural network architecture for profacc
rec: profnet-snapfun

neural network architecture for snapfun
rec: profphd

secondary structure and solvent accessibility predictor
rec: profphd-net

neural network architecture for profphd
rec: profphd-utils

profphd helper utilities convert_seq and filter_hssp
rec: proftmb

per-residue prediction of bacterial transmembrane beta barrels
rec: progressivemauve

multiple genome alignment algorithms
rec: proteinortho

Detection of (Co-)orthologs in large-scale protein analysis
rec: prottest

selection of best-fit models of protein evolution
rec: pscan-chip

ChIP-based identifcation of TF binding sites
rec: pscan-tfbs

search for transcription factor binding sites
rec: psortb

bacterial localization prediction tool
rec: pycorrfit

대수 플롯에 상관곡선을 맞추기 위한 도구
rec: pymol

Molecular Graphics System
rec: pynast

alignment of short DNA sequences
rec: pyscanfcs

scientific tool for perpendicular line scanning FCS
rec: python-cogent

framework for genomic biology
rec: python3-biomaj3-daemon

BioMAJ daemon library
rec: python3-gffutils

Work with GFF and GTF files in a flexible database framework
rec: python3-presto

toolkit for processing B and T cell sequences
rec: python3-pybedtools

Python 3 wrapper around BEDTools for bioinformatics work
rec: python3-pybel

Biological Expression Language
rec: python3-sqt

SeQuencing Tools for biological DNA/RNA high-throughput data
rec: pyvcf

helper scripts for Variant Call Format (VCF) parser
rec: qcumber

quality control of genomic sequences
rec: qtltools

Tool set for molecular QTL discovery and analysis
rec: quorum

QUality Optimized Reads of genomic sequences
rec: qutemol

interactive visualization of macromolecules
rec: r-bioc-annotate

BioConductor annotation for microarrays
rec: r-bioc-biostrings

GNU R string objects representing biological sequences
rec: r-bioc-bitseq

transcript expression inference and analysis for RNA-seq data
rec: r-bioc-cner

CNE Detection and Visualization
rec: r-bioc-cummerbund

tool for analysis of Cufflinks RNA-Seq output
rec: r-bioc-deseq2

R package for RNA-Seq Differential Expression Analysis
rec: r-bioc-dnacopy

R package: DNA copy number data analysis
rec: r-bioc-ebseq

R package for RNA-Seq Differential Expression Analysis
rec: r-bioc-genefilter

methods for filtering genes from microarray experiments
rec: r-bioc-geneplotter

R package of functions for plotting genomic data
rec: r-bioc-gviz

Plotting data and annotation information along genomic coordinates
rec: r-bioc-hilbertvis

GNU R package to visualise long vector data
rec: r-bioc-impute

Imputation for microarray data
rec: r-bioc-limma

linear models for microarray data
rec: r-bioc-mergeomics

Integrative network analysis of omics data
rec: r-bioc-metagenomeseq

GNU R statistical analysis for sparse high-throughput sequencing
rec: r-bioc-pcamethods

BioConductor collection of PCA methods
rec: r-bioc-phyloseq

GNU R handling and analysis of high-throughput microbiome census data
rec: r-bioc-rtracklayer

GNU R interface to genome browsers and their annotation tracks
rec: r-bioc-tfbstools

GNU R Transcription Factor Binding Site (TFBS) Analysis
rec: r-cran-adegenet

GNU R exploratory analysis of genetic and genomic data
rec: r-cran-adephylo

GNU R exploratory analyses for the phylogenetic comparative method
rec: r-cran-alakazam

Immunoglobulin Clonal Lineage and Diversity Analysis
rec: r-cran-ape

GNU R package for Analyses of Phylogenetics and Evolution
rec: r-cran-bio3d

GNU R package for biological structure analysis
rec: r-cran-distory

GNU R distance between phylogenetic histories
rec: r-cran-genabel

GNU R package for genome-wide SNP association analysis
rec: r-cran-metamix

GNU R bayesian mixture analysis for metagenomic community profiling
rec: r-cran-phangorn

GNU R package for phylogenetic analysis
rec: r-cran-phytools

GNU R phylogenetic tools for comparative biology
rec: r-cran-pscbs

R package: Analysis of Parent-Specific DNA Copy Numbers
rec: r-cran-qtl

GNU R package for genetic marker linkage analysis
rec: r-cran-rotl

GNU R interface to the 'Open Tree of Life' API
rec: r-cran-samr

GNU R significance analysis of microarrays
rec: r-cran-sdmtools

Species Distribution Modelling Tools
rec: r-cran-seqinr

GNU R biological sequences retrieval and analysis
rec: r-cran-shazam

Immunoglobulin Somatic Hypermutation Analysis
rec: r-cran-tcr

Advanced Data Analysis of Immune Receptor Repertoires
rec: r-cran-tigger

Infers new Immunoglobulin alleles from Rep-Seq Data
rec: r-cran-treescape

GNU R Statistical Exploration of Landscapes of Phylogenetic Trees
rec: r-cran-vegan

Community Ecology Package for R
rec: r-other-hms-dbmi-spp

virtual package provided by r-cran-spp
rec: r-other-mott-happy.hbrem

GNU R package for fine-mapping complex diseases
rec: racon

consensus module for raw de novo DNA assembly of long uncorrected reads
rec: radiant

explore hierarchical metagenomic data with zoomable pie charts
rec: rambo-k

Read Assignment Method Based On K-mers
rec: rampler

module for sampling genomic sequences
rec: rapmap

rapid sensitive and accurate DNA read mapping via quasi-mapping
rec: rasmol

생물학 고분자의 시각화
rec: raster3d

tools for generating images of proteins or other molecules
rec: rate4site

detector of conserved amino-acid sites
rec: raxml

계통 발생 트리의 Randomized Axelerated Maximum Likelihood (RAxML)
rec: ray

de novo genome assemblies of next-gen sequencing data
rec: rdp-alignment

Ribosomal Database Project (RDP) alignment tools package
rec: rdp-classifier

extensible sequence classifier for fungal lsu, bacterial and archaeal 16s
rec: rdp-readseq

Ribosomal Database Project (RDP) sequence reading and writing
rec: readseq

Conversion between sequence formats
rec: reapr

universal tool for genome assembly evaluation
rec: relion-bin

toolkit for 3D reconstructions in cryo-electron microscopy

or relion-bin mpi

parallel toolkit for 3D reconstructions in cryo-electron microscopy
rec: relion-bin gui

parallel toolkit for 3D reconstructions in cryo-electron microscopy

or relion-bin mpi gui

parallel toolkit for 3D reconstructions in cryo-electron microscopy
rec: repeatmasker-recon

finds repeat families from biological sequences
rec: reprof

protein secondary structure and accessibility predictor
rec: rna-star

ultrafast universal RNA-seq aligner
rec: rnahybrid

Fast and effective prediction of microRNA/target duplexes
rec: roary

high speed stand alone pan genome pipeline
rec: roguenarok

versatile and scalable algorithm for rogue taxon identification
rec: rsem

RNA-Seq by Expectation-Maximization
rec: rtax

Classification of sequence reads of 16S ribosomal RNA gene
rec: runcircos-gui

GUI tool to run circos
rec: saint

Significance Analysis of INTeractome
rec: salmon

wicked-fast transcript quantification from RNA-seq data
rec: samblaster

marks duplicates, extracts discordant/split reads
rec: samtools

SAM, BAM, CRAM 형식에서 시퀀스 정렬 처리
rec: scoary

pangenome-wide association studies
rec: scrm

simulator of evolution of genetic sequences
rec: scythe

Bayesian adaptor trimmer for sequencing reads
rec: seaview

Multiplatform interface for sequence alignment and phylogeny
rec: seer

genomic sequence element (kmer) enrichment analysis
rec: segemehl

short read mapping with gaps
rec: seqan-apps

C library for the analysis of biological sequences
rec: seqmagick

imagemagick-like frontend to Biopython SeqIO
rec: seqprep

stripping adaptors and/or merging paired reads of DNA sequences with overlap
rec: seqsero

Salmonella serotyping from genome sequencing data
rec: seqtk

Fast and lightweight tool for processing sequences in the FASTA or FASTQ format
rec: sga

de novo genome assembler that uses string graphs
rec: sibsim4

align expressed RNA sequences on a DNA template
rec: sickle

windowed adaptive trimming tool for FASTQ files using quality
rec: sigma-align

Simple greedy multiple alignment of non-coding DNA sequences
rec: sim4

tool for aligning cDNA and genomic DNA
rec: sim4db

batch spliced alignment of cDNA sequences to a target genome
rec: smalr

interrogation of the methylation status of nucleotide sequencing reads
rec: smalt

Sequence Mapping and Alignment Tool
rec: smithwaterman

determine similar regions between two strings or genomic sequences
rec: snap

location of genes from DNA sequence with hidden markov model
rec: snap-aligner

Scalable Nucleotide Alignment Program
rec: sniffles

structural variation caller using third-generation sequencing
rec: snp-sites

Binary code for the package snp-sites
rec: snpomatic

fast, stringent short-read mapping software
rec: soapaligner

aligner of short reads of next generation sequencers
rec: soapdenovo

short-read assembly method to build de novo draft assembly
rec: soapdenovo2

short-read assembly method to build de novo draft assembly
rec: soapsnp

resequencing utility that can assemble consensus sequence of genomes
rec: sortmerna

tool for filtering, mapping and OTU-picking NGS reads
rec: spaced

alignment-free sequence comparison using spaced words
rec: spades

genome assembler for single-cell and isolates data sets
rec: spoa

SIMD partial order alignment tool
rec: sprai

single-pass sequencing read accuracy improver
rec: spread-phy

analyze and visualize phylogeographic reconstructions
rec: squizz

Converter for genetic sequences and alignments
rec: sra-toolkit

utilities for the NCBI Sequence Read Archive
rec: srst2

Short Read Sequence Typing for Bacterial Pathogens
rec: ssake

genomics application for assembling millions of very short DNA sequences
rec: sspace

scaffolding pre-assembled contigs after extension
rec: ssw-align

Smith-Waterman aligner based on libssw
rec: stacks

pipeline for building loci from short-read DNA sequences
rec: staden

DNA sequence assembly (Gap4/Gap5), editing and analysis tools
rec: staden-io-lib-utils

programs for manipulating DNA sequencing files
rec: subread

toolkit for processing next-gen sequencing data
rec: suitename

categorize each suite in an RNA backbone
rec: sumaclust

fast and exact clustering of genomic sequences
rec: sumatra

fast and exact comparison and clustering of sequences
rec: sumtrees

Phylogenetic Tree Summarization and Annotation
rec: surankco

Supervised Ranking of Contigs in de novo Assemblies
rec: swarm

robust and fast clustering method for amplicon-based studies
rec: sweed

assessment of SNPs for their evolutionary advantage
rec: t-coffee

Multiple Sequence Alignment
rec: tabix

generic indexer for TAB-delimited genome position files
rec: tantan

low complexity and tandem repeat masker for biosequences
rec: theseus

superimpose macromolecules using maximum likelihood
rec: tigr-glimmer

Gene detection in archea and bacteria
rec: tm-align

단백질의 구조적 정렬
rec: tnseq-transit

statistical calculations of essentiality of genes or genomic regions
rec: toil

cross-platform workflow engine
rec: tophat

fast splice junction mapper for RNA-Seq reads
rec: topp

set of programs implementing The OpenMS Proteomic Pipeline
rec: toppred

transmembrane topology prediction
rec: trace2dbest

bulk submission of chromatogram data to dbEST
rec: tracetuner

interpretation of DNA Sanger sequencing data
rec: transdecoder

find coding regions within RNA transcript sequences
rec: transrate-tools

helper for transrate
rec: transtermhp

find rho-independent transcription terminators in bacterial genomes
rec: tree-puzzle

Reconstruction of phylogenetic trees by maximum likelihood

or tree-ppuzzle

최대 가능성에 의한 계통 발생 수의 병렬 재구성
rec: treeview

Java re-implementation of Michael Eisen's TreeView
rec: treeviewx

Displays and prints phylogenetic trees
rec: trimmomatic

flexible read trimming tool for Illumina NGS data
rec: trinityrnaseq

RNA-Seq De novo Assembly
rec: tvc

genetic variant caller for Ion Torrent sequencing platforms
rec: uc-echo

error correction algorithm designed for short-reads from NGS
rec: unanimity

generate and process accurate consensus nucleotide sequences
rec: unicycler

hybrid assembly pipeline for bacterial genomes
rec: varna

Visualization Applet for RNA
rec: vcftools

VCF 파일 작업을 위한 도구 모음
rec: velvet

Nucleic acid sequence assembler for very short reads

or velvet-long

Nucleic acid sequence assembler for very short reads, long version
rec: velvetoptimiser

automatically optimise Velvet do novo assembly parameters
rec: viewmol

graphical front end for computational chemistry programs
rec: vsearch

tool for processing metagenomic sequences
rec: wigeon

reimplementation of the Pintail 16S DNA anomaly detection utility
rec: wise

comparison of biopolymers, like DNA and protein sequences
rec: yaha

find split-read mappings on single-end queries
rec: zalign

parallel local alignment of biological sequences

sug: acacia

Package not available
sug: adun.app

Molecular Simulator for GNUstep (GUI)
sug: amos-assembler

Package not available
sug: amoscmp

Package not available
sug: annovar

Package not available
sug: apollo

Package not available
sug: arachne

Package not available
sug: arb

phylogenetic sequence analysis suite - main program
sug: asap

Package not available
sug: atropos

Package not available
sug: autodocktools

Package not available
sug: axparafit

Package not available
sug: axpcoords

Package not available
sug: bagpipe

Package not available
sug: bambus

Package not available
sug: bax2bam

Package not available
sug: biceps

Package not available
sug: big-blast

Package not available
sug: bigsdb

Package not available
sug: biobambam2

Package not available
sug: bismark

Package not available
sug: blat

Package not available
sug: blimps-utils

blocks database improved searcher
sug: blobology

Package not available
sug: braker

Package not available
sug: btk-core

Package not available
sug: cactus

Package not available
sug: caftools

Package not available
sug: cain

simulations of chemical reactions
sug: card-rgi

Package not available
sug: ccs

Package not available
sug: cdna-db

Package not available
sug: cellprofiler

Package not available
sug: cinema

Package not available
sug: cluster3

Reimplementation of the Eisen-clustering software
sug: cmap

Package not available
sug: compclust

Package not available
sug: condetri

Package not available
sug: contrafold

Package not available
sug: contralign

Package not available
sug: coot

Package not available
sug: copycat

Package not available
sug: crossbow

Package not available
sug: crux-toolkit

Package not available
sug: cufflinks

Transcript assembly, differential expression and regulation for RNA-Seq
sug: cytoscape

Package not available
sug: dascrubber

alignment-based scrubbing pipeline for DNA sequencing reads
sug: dazzle

Package not available
sug: deepbinner

Package not available
sug: dendroscope

Package not available
sug: e-hive

Package not available
sug: ecell

Package not available
sug: embassy-phylip

EMBOSS conversions of the programs in the phylip package
sug: emboss-explorer

web-based GUI to EMBOSS
sug: emmax

Package not available
sug: emperor

Package not available
sug: ensembl

Package not available
sug: estferret

Package not available
sug: euler-sr

Package not available
sug: euler2

Package not available
sug: exabayes

Package not available
sug: exalt

Package not available
sug: excavator

Package not available
sug: falcon

Package not available
sug: fasta3

tools for searching collections of biological sequences
sug: ffp

Package not available
sug: figaro

Package not available
sug: filtlong

Package not available
sug: forester

Package not available
sug: forge

Package not available
sug: galaxy

Package not available
sug: gassst

Package not available
sug: gatk

Package not available
sug: gbrowse-syn

Package not available
sug: genemark

Package not available
sug: genesplicer

Package not available
sug: genetrack

Package not available
sug: genezilla

Package not available
sug: genographer

Package not available
sug: getdata

management of external databases
sug: gffread

Package not available
sug: glimmerhmm

Package not available
sug: gmap

spliced and SNP-tolerant alignment for mRNA and short reads
sug: gmv

Package not available
sug: gramalign

Package not available
sug: haploview

Package not available
sug: hawkeye

Package not available
sug: htqc

Package not available
sug: igdiscover

Package not available
sug: igv

Package not available
sug: inspect

Package not available
sug: jalview

Package not available
sug: jbrowse

Package not available
sug: jigsaw

Package not available
sug: kallisto

Package not available
sug: kempbasu

Package not available
sug: kma

Package not available
sug: kmerresistance

Package not available
sug: kraken2

Package not available
sug: lofreq

Package not available
sug: mach-haplotyper

Package not available
sug: mage2tab

Package not available
sug: maker2

Package not available
sug: malt

Package not available
sug: manta

Package not available
sug: martj

Package not available
sug: maude

고성능 로지컬 프레임워크
sug: maxd

Package not available
sug: meme

Package not available
sug: mesquite

Package not available
sug: metabit

Package not available
sug: metarep

Package not available
sug: metastudent-data

predictor of Gene Ontology terms from protein sequence - data files
sug: metastudent-data-2

predictor of Gene Ontology terms from protein sequence - data #2
sug: metastudent-data-3

Package not available
sug: mgltools-cadd

Computer Aided Drug Discovery (CADD) Pipeline
sug: mgltools-pmv

Package not available
sug: mgltools-vision

Python-based Visual Programming Environment
sug: migrate

Package not available
sug: minimus

Package not available
sug: mirbase

Package not available
sug: mirtop

Package not available
sug: mobyle

Web portal that provides web forms for command-line software
sug: mobyle-programs

program descriptions for the mobyle portal
sug: mobyle-tutorials

program tutorials for the mobyle portal
sug: modeller

Package not available
sug: molekel

Package not available
sug: mosaik-aligner

Package not available
sug: mosdepth

Package not available
sug: mpsqed

Package not available
sug: mrs

Information Retrieval System for Biomedical databanks
sug: msatfinder

Package not available
sug: msxpertsuite

Package not available
sug: mugsy

Package not available
sug: multiqc

Package not available
sug: mummergpu

Package not available
sug: mview

Package not available
sug: nanocall

Package not available
sug: ncbi-igblast

Package not available
sug: nextsv

Package not available
sug: ngila

Package not available
sug: ngsqctoolkit

Package not available
sug: nw-align

Package not available
sug: oases

Package not available
sug: obo-edit

Package not available
sug: oligoarrayaux

Package not available
sug: omegamap

Package not available
sug: oncofuse

Package not available
sug: operondb

Package not available
sug: optimir

Package not available
sug: optitype

Package not available
sug: paipline

Package not available
sug: partigene

Package not available
sug: partitionfinder

Package not available
sug: patristic

Package not available
sug: pcma

Package not available
sug: pfaat

Package not available
sug: phagefinder

Package not available
sug: phpphylotree

Package not available
sug: phylographer

Package not available
sug: phylophlan

Package not available
sug: phyloviz-core

Package not available
sug: phylowin

Package not available
sug: pilercr

Package not available
sug: pipasic

Package not available
sug: plato

Package not available
sug: profit

Package not available
sug: prokka

Package not available
sug: prot4est

Package not available
sug: psipred

Package not available
sug: pssh2

Package not available
sug: pyrophosphate-tools

Package not available
sug: python-orange

Package not available
sug: python-reaper

Package not available
sug: python-treetime

Package not available
sug: python3-geneimpacts

Package not available
sug: qiime

Package not available
sug: qtlcart

Package not available
sug: qualimap

Package not available
sug: quast

Package not available
sug: r-bioc-annotationhub

GNU R client to access AnnotationHub resources
sug: r-bioc-aroma.light

BioConductor methods normalization and visualization of microarray data
sug: r-bioc-ensembldb

GNU R utilities to create and use an Ensembl based annotation database
sug: r-bioc-go.db

annotation maps describing the entire Gene Ontology
sug: r-bioc-savr

GNU R parse and analyze Illumina SAV files
sug: r-cran-boolnet

assembling, analyzing and visualizing Boolean networks
sug: r-cran-forecast

Package not available
sug: r-cran-pheatmap

GNU R package to create pretty heatmaps
sug: r-cran-qqman

R package for visualizing GWAS results using Q-Q and manhattan plots
sug: r-cran-rentrez

GNU R interface to the NCBI's EUtils API
sug: r-cran-webgestaltr

Package not available
sug: r-other-apmswapp

Package not available
sug: raccoon

Package not available
sug: ragout

Package not available
sug: raxml-ng

Package not available
sug: rbs-finder

Package not available
sug: repeatmasker

Package not available
sug: rmblast

Package not available
sug: roadtrips

Package not available
sug: roche454ace2caf

Package not available
sug: rose

Package not available
sug: rsat

Package not available
sug: sailfish

Package not available
sug: sambamba

Package not available
sug: sap

Package not available
sug: science-workflow

workflow management systems useful for scientific research
sug: seq-gen

simulate the evolution of nucleotide or amino acid sequences
sug: seq-seq-pan

Package not available
sug: sequenceconverter.app

Package not available
sug: sibelia

Package not available
sug: sift

predicts if a substitution in a protein has a phenotypic effect
sug: sina

Package not available
sug: sistr

Package not available
sug: situs

Package not available
sug: smrtanalysis

Package not available
sug: snpeff

Package not available
sug: solvate

arranges water molecules around protein structures
sug: sourmash

Package not available
sug: spaln

Package not available
sug: sparta

Package not available
sug: splitstree

Package not available
sug: ssaha

Package not available
sug: strap

Package not available
sug: strap-base

Package not available
sug: stringtie

Package not available
sug: tab2mage

Package not available
sug: tacg

Package not available
sug: taverna

Package not available
sug: taxinspector

Package not available
sug: tetra

Package not available
sug: tide

Package not available
sug: tigr-glimmer-mg

Package not available
sug: tn-seqexplorer

Package not available
sug: treebuilder3d

Package not available
sug: treetime

Package not available
sug: tripal

Package not available
sug: trnascan-se

detection of transfer RNA genes in genomic sequence
sug: twain

Package not available
sug: ugene

Package not available
sug: umap

Package not available
sug: umis

Package not available
sug: unc-fish

Package not available
sug: uniprime

Package not available
sug: varmatch

Package not available
sug: varscan

variant detection in next-generation sequencing data
sug: vcfanno

Package not available
sug: vdjtools

Package not available
sug: vienna-rna

Package not available
sug: virulencefinder

Package not available
sug: vmd

Package not available
sug: x-tandem-pipeline

Package not available
sug: zodiac-zeden

Package not available

Download med-bio

Download for all available architectures
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