Most popular bioinformatics repositories and open source projects

manyfold

🧬 ManyFold: An efficient and flexible library for training and validat...

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single-cell-training

SIB course on single cell transcriptomics by mostly using the Seurat p...

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Genotify

A minimal desktop app for easy and convenient gene annotation.

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liger

Lightweight Iterative Gene set Enrichment in R

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liblevenshtein-java

Various utilities regarding Levenshtein transducers. (Java)

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tigmint

⛓ Correct misassemblies using linked AND long reads

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pathway-mapper

PathwayMapper: An interactive and collaborative graphical curation too...

28   53   53  

CellO

CellO: Gene expression-based hierarchical cell type classification usi...

10   53   53  

emperor

Emperor a tool for the analysis and visualization of large microbial e...

50   52   52  

awesome-bioinformatics-formats

Curated list of bioinformatics formats and publications

4   52   52  

assembly_improvement

Improve the quality of a denovo assembly by scaffolding and gap fillin...

21   52   52  

biskit

A Python platform for Structural Bioinformatics

20   52   52  

FlashWeave.jl

Inference of microbial interaction networks from large-scale heterogen...

7   52   52  

aviary

A hybrid assembly and MAG recovery pipeline (and more!)

8   52   52  

go-dicom

DICOM parser for golang

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find_differential_primers

Code for design of diagnostic PCR primers, and metabarcoding markers.

23   51   51  

metacache

memory efficient, fast & precise taxnomomic classification system for...

8   51   51  

ultra

Long-read splice alignment with high accuracy

8   51   51  

woltka

Woltka: a versatile meta'omic data classifier

23   51   51  

awesome-molecular-docking

We would like to maintain a list of resources which aim to solve molec...

2   51   51  

gccontent-benchmark

Benchmarking different languages for a simple bioinformatics task (Cou...

17   50   50  

jannovar

Annotation of VCF variants with functional impact and from databases (...

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locuszoom-standalone

Create regional association plots from GWAS or meta-analysis

19   50   50  

slurmR

slurmR: A Lightweight Wrapper for Slurm

8   50   50  

ClassifyCNV

ClassifyCNV: a tool for clinical annotation of copy-number variants

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TeamTeri

Genomics (computational bioinformatic data analysis) running on GCP, A...

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cirrocumulus

Bring your single-cell data to life

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Work_flow_of_population_genetics

整理常用的群体遗传学分析流程和脚本

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Agora

Algorithm For Gene Order Reconstruction in Ancestors

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r2g

A homology-based, computationally lightweight pipeline for discovering...

2   49   49  

bioperl6

reimplementation of BioPerl classes in Raku (e.g. the language formerl...

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hts-python

pythonic wrapper for libhts (moved to: https://github.com/quinlan-lab/...

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2020plus

Classifies genes as an oncogene, tumor suppressor gene, or as a non-dr...

17   49   49  

docker-4dn-hic

Docker for 4DN Hi-C processing pipeline

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geneview

Genomics data visualization in Python by using matplotlib.

8   49   49  

panoptes

Monitor computational workflows in real time

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lynnlangit

Lynn Langit profile

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fq

Command line utility for manipulating Illumina-generated FastQ files.

4   49   49  

prodigy

Repository containing various scripts to predict the binding affinity...

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BIGSdb

Bacterial Isolate Genome Sequence Database (BIGSdb): A platform for ge...

19   49   49  

ococo

Ococo: the first online variant and consensus caller. Call genomic con...

4   48   48  

bioinformatics-hacks

Scripts for miscelleneous bioinformatics tasks

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eutils

simplified searching, fetching, and parsing records from NCBI using th...

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CoGAPS

Bayesian MCMC matrix factorization algorithm

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hic2cool

Lightweight converter between hic and cool contact matrices.

6   48   48  

cath-tools

Protein structure comparison tools such as SSAP and SNAP

13   48   48  

awesome-ai

Awesome list for all things AI, ML and deep learning

6   48   48  

mantis

A package to annotate protein sequences

5   48   48  

proteinsolver

Graph neural network for generating novel amino acid sequences that fo...

7   48   48  

vembrane

vembrane filters VCF records using python expressions

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