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The Top 23 Pipeline Bioinformatics Open Source Projects

Open source projects categorized as Pipeline 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
Rush ⭐ 782
A cross-platform command-line tool for executing jobs in parallel
total releases 32most recent commit 5 months ago
Juicer ⭐ 313
A One-Click System for Analyzing Loop-Resolution Hi-C Experiments
most recent commit a year 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
Bedops ⭐ 244
🔬 BEDOPS: high-performance genomic feature operations
total releases 1most recent commit 2 years ago
Bpipe ⭐ 220
Bpipe - a tool for running and managing bioinformatics pipelines
most recent commit 7 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
Gatk Sv ⭐ 148
A structural variation pipeline for short-read sequencing
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
Redundans ⭐ 121
Redundans is a pipeline that assists an assembly of heterozygous/polymorphic genomes.
most recent commit 4 months ago
Rnalysis ⭐ 114
RNA sequencing analysis software
total releases 43most recent commit 4 months ago
Eager ⭐ 112
A fully reproducible and state-of-the-art ancient DNA analysis pipeline
most recent commit 3 months ago
Cloops ⭐ 99
Accurate and flexible loops calling tool for 3D genomic data.
most recent commit 2 years ago
Biojupies ⭐ 94
Automated generation of tailored bioinformatics Jupyter Notebooks via a user interface.
most recent commit 2 years ago
Dolphinnext ⭐ 92
A graphical user interface for distributed data processing of high throughput genomics
most recent commit a year ago
Fermikit ⭐ 91
De novo assembly based variant calling pipeline for Illumina short reads
most recent commit 3 years ago
Ilus ⭐ 89
A handy variant calling pipeline generator for whole-genome sequencing (WGS) and whole exom sequencing data (WES) analysis. 一个简易且全面的 WGS/WES 分析流程生成器.
total releases 13most recent commit 4 months ago
The 8 Most Depended On Pipeline 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
Pypiper ⭐ 42
Python toolkit for building restartable pipelines
dependent packages 3total releases 22latest release November 15, 2023most recent commit 4 months agopypi piper} 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 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
Rnalysis ⭐ 114
RNA sequencing analysis software
total releases 43latest release November 22, 2023most recent commit 4 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
Curare ⭐ 6
Curare - A customizable and reproducible analysis pipeline for RNA-Seq experiments
total releases 5latest release November 16, 2023most recent commit 5 months ago
Pypiper ⭐ 42
Python toolkit for building restartable pipelines
dependent packages 3total releases 22latest release November 15, 2023most recent commit 4 months agopypi piper} Downloads
Rush ⭐ 782
A cross-platform command-line tool for executing jobs in parallel
total releases 32latest release November 13, 2023most recent commit 5 months ago
Bioluigi ⭐ 9
Reusable and maintained Luigi tasks to incorporate in bioinformatics pipelines
total releases 20latest release October 03, 2023most recent commit 6 months ago
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