Most popular bioinformatics repositories and open source projects

Perl-for-Bioinformatics biocoder Python

An attempt to help anyone interested in using Perl for Bioinformatics

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oliver stjudecloud Python

An opinionated Cromwell orchestration manager.

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tiptoft andrewjpage Python

Predict plasmids from uncorrected long read data

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Wochenende MHH-RCUG Python

Deprecated see https://github.com/MHH-RCUG/nf_wochenende : A whole Genome/Metagenome Sequencing Alignment Pipeline in Python3

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NGS HorvathLab Python

Next-Gen Sequencing tools from the Horvath Lab

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OmicSelector kstawiski R

OmicSelector - Environment, docker-based application and R package for biomarker signiture selection (feature selection) & deep learning diagnostic to...

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wdlRunR seandavi R

Elastic, reproducible, and reusable genomic data science tools from R backed by cloud resources

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GeneticVariation.jl BioJulia Julia

Datastructures and algorithms for working with genetic variation

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psamm zhanglab Python

Curation and analysis of metabolic models

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grupo-estudo-bioinformatica pyladies-brazil Jupyter Notebook

Repositório do grupo de estudo de Bioinformática da rede de comunidades das PyLadies Brasil.

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Skyhawk aquaskyline Python

An Artificial Neural Network-based discriminator for validating clinically significant genomic variants

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sbgnviz.js iVis-at-Bilkent JavaScript

A web based visualization tool for process description maps in SBGN

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2017_2018-single-cell-RNA-sequencing-Workshop-UCD_UCB_UCSF ucdavis-bioinformatics-training HTML

2017_2018 single cell RNA sequencing Workshop UCD_UCB_UCSF

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partig lh3 C

An experimental tool to estimate the similarity between all pairs of contigs

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CuteVCF labsquare C++

simple viewer for variant call format using htslib

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BioPosDep datquocnguyen Python

Tokenization, sentence segmentation, POS tagging and dependency parsing for biomedical texts (BMC Bioinformatics 2019)

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ctdna-pipeline OpenGene Shell

A simplified pipeline for ctDNA sequencing data analysis

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DCC dieterich-lab Python

DCC uses output from the STAR read mapper to systematically detect back-splice junctions in next-generation sequencing data. DCC applies a series of f...

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sevenbridges-r sbg R

Seven Bridges API Client, CWL Schema, Meta Schema, and SDK Helper in R

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LEXICON IbrahimTanyalcin JavaScript

Data visualization library for creating interactive graphs and dashboards for bioinformatics etc.

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biozsh kloetzl Shell

the z in bioinformatics

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ReductionWrappers milescsmith R

R wrappers to connect Python dimensional reduction tools and single cell data objects (Seurat, SingleCellExperiment, etc...)

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RNA-Playground BackofenLab JavaScript

Visualize the inner workings of RNA bioinformatics algorithms for structure prediction, interaction prediction and sequence alignment.

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NASQAR nasqar HTML

NASQAR: A web-based platform for High-throughput sequencing data analysis and visualization

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conda-env-builder conda-incubator Scala

Build and maintain multiple custom conda environments all in one place.

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BiFusion zcwang0702 Python

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PopDel kehrlab C++

Population-wide Deletion Calling

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klib.nim lh3 Nim

Experimental getopt, gzip reader, FASTA/Q parser and interval queries in nim-lang

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peppy pepkit Python

Project metadata manager for PEPs in Python

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MindTheGap GATB C++

MindTheGap is a SV caller for short read sequencing data dedicated to insertion variants (all sizes and types). It can also be used as a local assembl...

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