parallel fastq-dump wrapper

Protein structure diffusion model for unconditional protein generation and motif scaffolding

Code for the ProteinMPNN paper

An easy-to-use, flexible website template for labs.

Analysis of mtDNA variants that are synonymous, specifically m7076A>G

Code for running RFdiffusion

machine-readable file format for genomic library sequence and structure

A resource of adverse drug effects extracted from FDA structured product labels

Fast and accurate in silico inference of HLA genotypes from RNA-seq

Protein design and variant prediction using autoregressive generative models

A count based method for detecting doublets from single nucleus ATAC-seq (snATAC-seq) data.

A modular, containerized pipeline for ATAC-seq data processing

kallisto index tag extractor

EF data analysis

For biological deep sequencing data. Decompose a UCSC knownGenes/Ensembl GTF file into transcript regions (i.e. exons, introns, UTRs and CDS).

Fast multi-line FASTA/Q reader in several programming languages

A fast, accurate, and modularized dimensionality reduction approach based on diffusion harmonics and graph layouts. Escalates to millions of samples on a personal laptop. Adds high-dimensional big …

CHISEL -- Copy-number Haplotype Inference in Single-cell by Evolutionary Links

📚 Tools and databases for analyzing HLA and VDJ genes.

HaploGrep - mtDNA haplogroup classification. Supporting rCRS and RSRS.

ArchR : Analysis of Regulatory Chromatin in R (www.ArchRProject.com)

Mean Alterations Using Discrete Expression

Multi-Omics Factor Analysis

MSOAR2.0 program

Rapid fuzzy string matching in Python using various string metrics

This is a one-off Nextstrain build for SARS-like coronaviruses

An unsupervised approach for the integrative analysis of single-cell multi-omics data

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