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The Top 23 Pipeline Workflow Bioinformatics Open Source Projects

Open source projects categorized as Pipeline Workflow Bioinformatics
Categories > Data Processing > Bioinformatics
Categories > Data Processing > Pipeline
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
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
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
Mag ⭐ 164
Assembly and binning of metagenomes
most recent commit 3 months 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
Eager ⭐ 112
A fully reproducible and state-of-the-art ancient DNA analysis pipeline
most recent commit 3 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
Tasks ⭐ 78
A collection of reusable WDL tasks. Category:Other
most recent commit 7 months ago
Taxprofiler ⭐ 78
Highly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic data
most recent commit 3 months ago
Configs ⭐ 73
Config files used to define parameters specific to compute environments at different Institutions
most recent commit 3 months ago
Cosmos2 ⭐ 72
Python Scientific Pipeline Management System
most recent commit a year ago
Aviary ⭐ 62
A hybrid assembly and MAG recovery pipeline (and more!)
total releases 19most recent commit 3 months ago
Funcscan ⭐ 49
(Meta-)genome screening for functional and natural product gene sequences
most recent commit 3 months ago
Pipeline Builder ⭐ 48
Pipeline Builder is a JavaScript library for visualizing and constructing bioinformatics workflows, using Workflow Description Language (WDL)
dependent packages 3total releases 33most recent commit a year agonpm pipeline-builder} Downloads
Microbiomebestpracticereview ⭐ 45
Current Challenges and Best Practice Protocols for Microbiome Analysis using Amplicon and Metagenomic Sequencing
most recent commit 2 years ago
Bistro ⭐ 44
A library to build and execute typed scientific workflows
most recent commit 10 months ago
Janis ⭐ 39
[Alpha] Janis: an open source tool to machine generate type-safe CWL and WDL workflows
dependent packages 7total releases 62most recent commit 8 months agopypi janis-pipelines.core} Downloads
The 6 Most Depended On Pipeline 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
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
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
The 10 Latest Releases In Pipeline 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
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
Scipipe ⭐ 1,010
Robust, flexible and resource-efficient pipelines using Go and the commandline
total releases 47latest release October 14, 2021most recent commit 9 months ago
Flowr ⭐ 83
Robust and efficient workflows using a simple language agnostic approach
total releases 7latest release March 02, 2021most recent commit 3 years ago
Ymp ⭐ 13
Flexible omics pipeline
total releases 6latest release August 17, 2020most recent commit 3 years ago
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