Most popular bioinformatics repositories and open source projects

myvariant.info

MyVariant.info: A BioThings API for human variant annotations

30   82   82  

bio

A lightweight and high-performance bioinformatics package in Golang

9   82   82  

dgenies

Dotplot large Genomes in an Interactive, Efficient and Simple way

13   82   82  

sinto

Tools for single-cell data processing

18   82   82  

CAFE5

Version 5 of the CAFE phylogenetics software

21   82   82  

Coursera-Specializations

Solutions to assignments of Coursera Specializations - Deep learning,...

49   81   81  

biopython-coronavirus

Biopython Jupyter Notebook tutorial to characterize a small genome

17   81   81  

aioli

Framework for building fast genomics web tools with WebAssembly and We...

7   81   81  

MicrobiomeBestPracticeReview

Current Challenges and Best Practice Protocols for Microbiome Analysis...

33   81   81  

seqfu2

:rocket: seqfu - Sequece Fastx Utilities

4   81   81  

GenomicsDB

Highly performant data storage for importing, querying and transformin...

19   81   81  

scRNAseq_analysis_vignette

Tutorial for scRNA-seq data analysis beginners using R

31   80   80  

flexidot

Highly customizable, ambiguity-aware dotplots for visual sequence anal...

16   80   80  

tftargets

:dart: Human transcription factor target genes from 6 databases in con...

18   79   79  

unimap

A EXPERIMENTAL fork of minimap2 optimized for assembly-to-reference al...

5   79   79  

pytabix

:card_index: Retrieve data in genomic intervals with a Python interfac...

8   79   79  

SigProfilerMatrixGenerator

SigProfilerMatrixGenerator creates mutational matrices for all types o...

31   79   79  

pyhmmer

Cython bindings and Python interface to HMMER3.

9   79   79  

ilus

A handy variant calling pipeline generator for whole-genome sequencing...

25   78   78  

tasks

A collection of reusable WDL tasks. Category:Other

30   77   77  

ntHash

Fast hash function for DNA sequences

13   76   76  

SnakeStrike

A Low-cost Open-source High-speed Multi-camera Motion Capture System.

21   76   76  

BioBlender21

Blender plugin to process biological data and molecular work.

11   76   76  

fqgrep

Grep for FASTQ files

3   76   76  

pdb2pqr

PDB2PQR - determining titration states, adding missing atoms, and assi...

22   75   75  

ProteinFlow

Versatile computational pipeline for processing protein structure data...

2   75   75  

oswitch

Provides access to complex Bioinformatics software (even BioLinux!) in...

9   75   75  

GenomicDataCommons

Provide R access to the NCI Genomic Data Commons portal.

22   75   75  

BioStructures.jl

A Julia package to read, write and manipulate macromolecular structure...

19   75   75  

fermi

A WGS de novo assembler based on the FMD-index for large genomes

15   74   74  

ohmnet

OhmNet: Representation learning in multi-layer graphs

32   74   74  

wgd

Python package and CLI for whole-genome duplication related analyses

39   74   74  

xpclr

Code to compute the XP-CLR statistic to infer natural selection

24   74   74  

vcfpy

Python 3 library with good support for both reading and writing VCF

13   74   74  

Cell_BLAST

A BLAST-like toolkit for large-scale scRNA-seq data querying and annot...

10   74   74  

MSFragger

Ultrafast, comprehensive peptide identification for mass spectrometry–...

6   74   74  

cwl-svg

A library for generating an interactive SVG visualization of CWL workf...

18   73   73  

cmapR

Tools for manipulating annotated data matrices

33   73   73  

GEOquery

The bridge between the NCBI Gene Expression Omnibus and Bioconductor

34   73   73  

SemiBin

9   73   73  

bio

Bioinformatic infrastructure libraries

15   72   72  

haslr

A fast tool for hybrid genome assembly of long and short reads

8   72   72  

EDGE

EDGE is a highly adaptable bioinformatics platform that allows laborat...

32   72   72  

czid-web

Infectious Disease Sequencing Platform

19   72   72  

snps

tools for reading, writing, merging, and remapping SNPs

18   72   72  

pyrpipe

Reproducible bioinformatics pipelines in python. Import any Unix tool/...

28   72   72  

pairix

1D/2D indexing and querying on bgzipped text file with a pair of genom...

12   71   71  

chaipcr

The software behind Chai's open-source Real-Time PCR instrument

32   71   71  

EBImage

:art: Image processing toolbox for R

28   71   71  

Peptides

An R package to calculate indices and theoretical physicochemical prop...

20   71   71