Most popular bioinformatics repositories and open source projects

workshops

Bioconnector Workshops

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GSSplayground

Lightweight single-html-file-based Genome Segments playground for Visu...

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vdjviz

⚙️ A lightweight immune repertoire browser

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informME

An information-theoretic pipeline for methylation analysis of WGBS dat...

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REPTILE

Predicting regulatory DNA elements based on epigenomic signatures

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kinfin

Taxon-aware analysis of clustered protein sequences

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NASQAR

NASQAR: A web-based platform for High-throughput sequencing data analy...

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autopvs1

An automatic classification tool for PVS1 interpretation of null varia...

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wdldoc

Create WDL documentation using Markdown.

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iroki

Super snazzy online phylogenetic tree viewer with automatic customizat...

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causalpath

A project for exploring differentially active signaling paths related...

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CodonAdaptationIndex

Python Implementation of Codon Adaption Index

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pisces

PISCES is a pipeline for rapid transcript quantitation, genetic finger...

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PCG

𝙋𝙝𝙮𝙡𝙤𝙜𝙚𝙣𝙚𝙩𝙞𝙘 𝘾𝙤𝙢𝙥𝙤𝙣𝙚𝙣𝙩 𝙂𝙧𝙖𝙥𝙝 ⸺ Haskell program and libraries for gener...

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nthash

ntHash implementation in Rust

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ribotricer

A tool for accurately detecting actively translating ORFs from Ribo-se...

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AutoImpute

AutoImpute : Autoencoder based imputation of single cell RNA-seq data

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DeepMAsED

Deep learning for Metagenome Assembly Error Detection

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msabrowser

🧬 MSABrowser: dynamic and fast visualization of sequence alignments,...

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OmicSelector

OmicSelector - Environment, docker-based application and R package for...

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metheor

:comet: Ultrafast DNA methylation heterogeneity calculation from bisul...

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multitax

Python package to obtain, parse and explore biological taxonomies (GTD...

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vcfdist

vcfdist: Accurately benchmarking complex phased variant calls

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BLEND

BLEND is a mechanism that can efficiently find fuzzy seed matches betw...

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admixr

An R package for reproducible and automated ADMIXTOOLS analyses

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BridgeDb

The BridgeDb Library source code

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wgs2ncbi

Toolkit for preparing genomes for submission to NCBI

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illumina450k_filtering

A collection of resources to filter 'bad' probes from the Illumina 450...

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Bio-py

Some useful python scripts for biologists

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drug2ways

A Python package for drug discovery by analyzing causal paths on multi...

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electrostatics.github.io

APBS & PDB2PQR - software for biomolecular electrostatics and solvatio...

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youtube

Collection of YouTube videos on data science on the Data Professor You...

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qurro

Visualize differentially ranked features (taxa, metabolites, ...) and...

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training-and-engagement

Materials for the Training and Engagement Website

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mudskipper

A tool for projecting genomic alignments to transcriptomic coordinates

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cgview_comparison_tool

The CGView Comparison Tool (CCT) is a package for visually comparing b...

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PhyloFisher

PhyloFisher is a software package written in Python3 that can be used...

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zarp

Zavolan-Lab Automated RNA-Seq Pipeline

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KG4SL

Synthetic lethality (SL) is a promising gold mine for the discovery of...

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nf-LO

A Nextflow workflow to generate lift over files for any pair of genome...

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mixs

Minimum Information about any (X) Sequence” (MIxS) specification

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FusionDirect.jl

(No maintenance) Detect gene fusion directly from raw fastq files

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pyEnsemblRest

A client for the Ensembl REST API written in the Python programming la...

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fermi2

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crop-seq

Data analysis scripts for Datlinger et. al, 2017 (doi:10.1038/nmeth.41...

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argparse2tool

transparently build CWL and Galaxy XML tool definitions for any script...

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BioinformaticsIntroduction

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compomics-utilities

Open source Java library for computational proteomics

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rnacentral-webcode

RNAcentral website source code

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CENTIPEDE.tutorial

:bug: How to use CENTIPEDE to determine if a transcription factor is b...

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