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The Top 23 Workflow Bioinformatics Open Source Projects

Open source projects categorized as Workflow Bioinformatics
Categories > Data Processing > Bioinformatics
Nextflow ⭐ 2,447
A DSL for data-driven computational pipelines
dependent packages 16total releases 250most recent commit 3 months ago
Galaxy ⭐ 1,211
Data intensive science for everyone.
dependent packages 23total releases 30most recent commit 3 months agopypi galaxy-util} Downloads
Scipipe ⭐ 1,010
Robust, flexible and resource-efficient pipelines using Go and the commandline
total releases 47most recent commit 9 months ago
Cromwell ⭐ 944
Scientific workflow engine designed for simplicity & scalability. Trivially transition between one off use cases to massive scale production environments
total releases 37most recent commit 3 months ago
Wdl ⭐ 706
Workflow Description Language - Specification and Implementations
total releases 20most recent commit 3 months ago
Arvados ⭐ 354
An open source platform for managing and analyzing biomedical big data
total releases 9most recent commit 3 months ago
Sarek ⭐ 299
Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
most recent commit 3 months ago
Cuneiform ⭐ 215
Cuneiform distributed programming language
total releases 5most recent commit 10 months ago
Tools ⭐ 205
Python package with helper tools for the nf-core community.
dependent packages 2total releases 42most recent commit 3 months agopypi nf-core} Downloads
Ugene ⭐ 190
UGENE is free open-source cross-platform bioinformatics software
most recent commit 3 months ago
Pegasus ⭐ 168
Pegasus Workflow Management System - Automate, recover, and debug scientific computations.
dependent packages 2total releases 7most recent commit 3 months agopypi pegasus-wms.api} Downloads
Mag ⭐ 164
Assembly and binning of metagenomes
most recent commit 3 months ago
Genomics ⭐ 154
A collection of scripts and notes related to genomics and bioinformatics
most recent commit 2 years ago
Rnaseq Workflow ⭐ 133
A repository for setting up a RNAseq workflow
most recent commit 7 years ago
Seq2science ⭐ 132
Automated and customizable preprocessing of Next-Generation Sequencing data, including full (sc)ATAC-seq, ChIP-seq, and (sc)RNA-seq workflows. Works equally easy with public as local data.
most recent commit 5 months ago
Sarek ⭐ 126
Detect germline or somatic variants from normal or tumour/normal whole-genome or targeted sequencing
most recent commit 4 years ago
Dockstore ⭐ 113
Our VM/Docker sharing infrastructure and management component
most recent commit 3 months ago
Eager ⭐ 112
A fully reproducible and state-of-the-art ancient DNA analysis pipeline
most recent commit 3 months ago
Buddysuite ⭐ 105
Bioinformatics toolkits for manipulating sequence, alignment, and phylogenetic tree files
total releases 18most recent commit 2 years ago
Rabix ⭐ 104
[Historical] Reproducible Analyses for Bioinformatics
most recent commit 5 years ago
Biomake ⭐ 93
GNU-Make-like utility for managing builds and complex workflows
most recent commit 5 months ago
Dolphinnext ⭐ 92
A graphical user interface for distributed data processing of high throughput genomics
most recent commit a year ago
Flowr ⭐ 83
Robust and efficient workflows using a simple language agnostic approach
total releases 7most recent commit 3 years ago
The 9 Most Depended On Workflow Bioinformatics Open Source Projects
Galaxy ⭐ 1,211
Data intensive science for everyone.
dependent packages 23total releases 30latest release December 08, 2023most recent commit 3 months agopypi galaxy-util} Downloads
Nextflow ⭐ 2,447
A DSL for data-driven computational pipelines
dependent packages 16total releases 250latest release November 24, 2023most recent commit 3 months ago
Janis ⭐ 39
[Alpha] Janis: an open source tool to machine generate type-safe CWL and WDL workflows
dependent packages 7total releases 62latest release August 30, 2023most recent commit 8 months agopypi janis-pipelines.core} Downloads
Qmflows ⭐ 44
This library tackles the construction and efficient execution of computational chemistry workflows
dependent packages 5total releases 9latest release October 06, 2023most recent commit 7 months agopypi qmflows} Downloads
Cwl Svg ⭐ 72
A library for generating an interactive SVG visualization of CWL workflows
dependent packages 4total releases 74latest release January 17, 2023most recent commit a year agonpm cwl-svg} Downloads
Tools ⭐ 205
Python package with helper tools for the nf-core community.
dependent packages 2total releases 42latest release December 20, 2023most recent commit 3 months agopypi nf-core} Downloads
Bionode Watermill ⭐ 34
💧Bionode-Watermill: A (Not Yet Streaming) Workflow Engine
dependent packages 2total releases 5latest release October 26, 2016most recent commit 6 years agonpm bionode-waterwheel} Downloads
Pegasus ⭐ 168
Pegasus Workflow Management System - Automate, recover, and debug scientific computations.
dependent packages 2total releases 7latest release October 28, 2022most recent commit 3 months agopypi pegasus-wms.api} Downloads
The 10 Latest Releases In Workflow Bioinformatics Open Source Projects
Tools ⭐ 205
Python package with helper tools for the nf-core community.
dependent packages 2total releases 42latest release December 20, 2023most recent commit 3 months agopypi nf-core} Downloads
Galaxy ⭐ 1,211
Data intensive science for everyone.
dependent packages 23total releases 30latest release December 08, 2023most recent commit 3 months agopypi galaxy-util} Downloads
Nextflow ⭐ 2,447
A DSL for data-driven computational pipelines
dependent packages 16total releases 250latest release November 24, 2023most recent commit 3 months ago
Aviary ⭐ 62
A hybrid assembly and MAG recovery pipeline (and more!)
total releases 19latest release November 20, 2023most recent commit 3 months ago
Cromshell ⭐ 51
CLI for interacting with Cromwell servers
total releases 2latest release October 17, 2023most recent commit 6 months ago
Qmflows ⭐ 44
This library tackles the construction and efficient execution of computational chemistry workflows
dependent packages 5total releases 9latest release October 06, 2023most recent commit 7 months agopypi qmflows} Downloads
Arvados ⭐ 354
An open source platform for managing and analyzing biomedical big data
total releases 9latest release September 21, 2023most recent commit 3 months ago
Janis ⭐ 39
[Alpha] Janis: an open source tool to machine generate type-safe CWL and WDL workflows
dependent packages 7total releases 62latest release August 30, 2023most recent commit 8 months agopypi janis-pipelines.core} Downloads
Panoptes ⭐ 59
Monitor computational workflows in real time
total releases 5latest release August 07, 2023most recent commit 4 months ago
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