Most popular bioinformatics repositories and open source projects

biscuit

BISulfite-seq CUI Toolkit

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Toolkit

The MPI Bioinformatics Toolkit

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OmicLearn

πŸ§ͺ πŸ–₯ Transparent exploration of machine learning for biomarker disco...

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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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tigmint

β›“ Correct misassemblies using linked AND long reads

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pathway-mapper

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

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CellO

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

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emperor

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

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awesome-bioinformatics-formats

Curated list of bioinformatics formats and publications

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assembly_improvement

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

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biskit

A Python platform for Structural Bioinformatics

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FlashWeave.jl

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

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aviary

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

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ultra

Long-read splice alignment with high accuracy

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woltka

Woltka: a versatile meta'omic data classifier

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awesome-molecular-docking

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

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go-dicom

DICOM parser for golang

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find_differential_primers

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

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metacache

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

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gccontent-benchmark

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

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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

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slurmR

slurmR: A Lightweight Wrapper for Slurm

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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

ζ•΄η†εΈΈη”¨ηš„ηΎ€δ½“ι—δΌ ε­¦εˆ†ζžζ΅η¨‹ε’Œθ„šζœ¬

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Agora

Algorithm For Gene Order Reconstruction in Ancestors

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fq

Command line utility for manipulating Illumina-generated FastQ files.

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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...

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r2g

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

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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...

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docker-4dn-hic

Docker for 4DN Hi-C processing pipeline

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geneview

Genomics data visualization in Python by using matplotlib.

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panoptes

Monitor computational workflows in real time

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lynnlangit

Lynn Langit profile

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ococo

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

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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.

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cath-tools

Protein structure comparison tools such as SSAP and SNAP

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awesome-ai

Awesome list for all things AI, ML and deep learning

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mantis

A package to annotate protein sequences

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proteinsolver

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

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vembrane

vembrane filters VCF records using python expressions

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