Most popular bioinformatics repositories and open source projects

bio-ansible

Proof of concept to use ansible + Lmod to deploy a bioinformatics serv...

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tachyon

High-level API for storing and querying sequence variant data

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galaksio

An easy-to-use way for running Galaxy workflows.

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aptasuite

A full-featured bioinformatics software collection for the comprehensi...

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mageri

MAGERI - Assemble, align and call variants for targeted genome re-sequ...

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doepipeline

A python package for optimizing processing pipelines using statistical...

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matam

Mapping-Assisted Targeted-Assembly for Metagenomics

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workflows

Bioinformatics curated workflows that use Biocontainers tools

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myVCF

myVCF: a web-based platform for target and exome mutations data manage...

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MDMS

MDMS: Molecular Dynamics Made Simple; Python program facilitating perf...

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piquant

A pipeline to assess the quantification of transcripts.

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CEMiTool

Co-Expression Module Identification Tool (CEMiTool) official repositor...

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pipetaxon

PipeTaxon exposes the ncbi taxonomy database as a REST API.

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cookiecutter

DEPRECIATED! Please use nf-core/tools instead

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MAnorm

A robust model for quantitative comparison of ChIP-Seq data sets.

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sars-cov-2-processing-requests

Request execution of Galaxy SARS-CoV-2 variation analysis workflows on...

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fast-simple-lcsk

Fast and simple algorithms for computing both LCSk and LCSk+

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taeper

A small python program to simulate a real-time Nanopore sequencing run...

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pyBedGraph

A Python package for fast operations on 1-dimensional genomic signal t...

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geneSynonym

Quick access to gene synonyms

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GaussDCA.jl

Multivariate Gaussian Direct Coupling Analysis for residue contact pre...

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phylonium

♥ Fast and Accurate Estimation of Evolutionary Distances

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immunology-informatics

Immunology Informatics - Big Data Analysis in Immunology - Tutorials

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vargeno

Towards fast and accurate SNP genotyping from whole genome sequencing...

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ChemRICH

Chemical Similarity Enrichment analysis of metabolomics datasets

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LPWC

Lag Penalized Weighted Correlation for Time Series Clustering

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ymp

Flexible omics pipeline

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ngCGH

Tools for producing pseudo-cgh of next-generation sequencing data

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gdc-dnaseq-cwl

CWL for GDC DNASeq workflows

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Vespucci

A free (open source), cross-platform tool for spectroscopic data analy...

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biobank

Biorepository application for tracking biospecimens.

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BCO_Specification

Repository for support of the IEEE 2791-2020 standard. Please see our...

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nucleic-acid

BWT, FM-index and bits vector for analyzing DNA sequence data.

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BACTpipe

BACTpipe: An assembly and annotation pipeline for bacterial genomics

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PHAT

Pathogen-Host Analysis Tool - A modern Next-Generation Sequencing (NGS...

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pybbi

Python bindings to UCSC BigWig and BigBed library

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biojupies-plugins

User-submitted RNA-seq data analysis tools for BioJupies.

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referee

Reference genome quality scores

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saffrontree

SaffronTree: Reference free rapid phylogenetic tree construction from...

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sapporo

A standard implementation conforming to the Global Alliance for Genomi...

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pLink2

pLink is a software dedicated for the analysis of chemically cross-lin...

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CATT

An ultra-sensitive and precise tool for characterizing T cell CDR3 seq...

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cellguide

🧭 Navigate single-cell RNA-seq datasets in your web browser.

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lava

LAVA: Lightweight Assignment of Variant Alleles

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socru

Order and orientation of complete bacterial genomes

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PhyloTrees.jl

Phylogenetic trees in Julia

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hotmap

WebGL Heatmap Viewer for Big Data and Bioinformatics

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cvbio

Artisanal 🤣 bioinformatics tools and pipelines in Scala

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marge

API for HOMER in R for Genomic Analysis using Tidy Conventions

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bioSyntax-archive

Syntax highlighting for computational biology

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