Metapresence is a Python tool to calculate metrics to assess the evenness of the coverage distribution on DNA sequences, in order to infer their presence in a given sample.

Turn your data frame into a tableau style drag and drop UI interface to build visualization in R.

This is a repository for CAMPER.

MICROPHERRET: MICRObial PHEnotypic tRait ClassifieR using machine lEarning Techniques

BEAV: Bacterial Element Annotation reVamped

A modern resume template written in Typst, inspired by Awesome-CV

🦠📇 Microbial genomes-to-report pipeline

MAGinator - Accurate SNV calling and profiling of MAGs

A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs

Positron, a next-generation data science IDE

Open-source usearch

Python3 wrapper for parallelized gene prediction using Prodigal

Detection of NCLDV signatures in 'omic data

Improvement of Long Read Assemblies (ILRA) is a pipeline to help in the post assembly process (finishing) by cleaning and merging contigs, correct homopolymer tracks and circulate plastids. We also…

R package for distilling functional annotations of bacterial genomes and metagenomes

Python programs for processing GFF3 files

A checklist template for R code review

alignment-free coverage calculation for metagenomic binning >100 times faster

Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.

Count Regression for Correlated Observations with the Beta-binomial

A fast and accurate binning refinement tool to constructs high quality MAGs from the output of multiple binning tools.

Visualizations of distributions and uncertainty

MerCat2: python code for versatile k-mer counting and diversity estimation for database independent property analysis for metaome data

Genomic language model predicts protein co-regulation and function

Predict oxygen, temperature, salinity, and pH preferences of bacteria and archaea from a genome

Gene tree - species tree reconciliation from gene tree distributions

Pipeline for identification of eukaryotic contigs in metagenomic assemblies

This repository releases the model weights of ANNA16, an end-to-end, web-based tool that predicts 16S rRNA gene copy number (GCN) from 16S rRNA sequence.