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The Top 23 Pipeline Sequencing Open Source Projects

Open source projects categorized as Pipeline Sequencing
Categories > Data Processing > Pipeline
Categories > Science > Sequencing
Galaxy ⭐ 1,211
Data intensive science for everyone.
dependent packages 23total releases 30most recent commit 3 months agopypi galaxy-util} Downloads
Rnaseq ⭐ 718
RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.
most recent commit 3 months ago
Cnvkit ⭐ 435
Copy number variant detection from targeted DNA sequencing
total releases 50most recent commit 4 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
Snapatac ⭐ 227
Analysis Pipeline for Single Cell ATAC-seq
most recent commit 2 years ago
Ugene ⭐ 190
UGENE is free open-source cross-platform bioinformatics software
most recent commit 3 months ago
Sunbeam ⭐ 157
A robust, extensible metagenomics pipeline
most recent commit 3 months ago
Ampliseq ⭐ 141
Amplicon sequencing analysis workflow using DADA2 and QIIME2
most recent commit 3 months ago
Sequana ⭐ 136
Sequana: a set of Snakemake NGS pipelines
dependent packages 8total releases 90most recent commit 3 months agopypi sequana} Downloads
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
Methylseq ⭐ 121
Methylation (Bisulfite-Sequencing) analysis pipeline using Bismark or bwa-meth + MethylDackel
most recent commit 3 months ago
Rnalysis ⭐ 114
RNA sequencing analysis software
total releases 43most 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
Cloops ⭐ 99
Accurate and flexible loops calling tool for 3D genomic data.
most recent commit 2 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
Rna Seq Pipeline ⭐ 88
most recent commit 2 years ago
Hybpiper ⭐ 83
Recovering genes from targeted sequence capture data
most recent commit 9 months ago
Tormes ⭐ 82
Making whole bacterial genome sequencing data analysis easy
most recent commit a year ago
Nanopype ⭐ 78
Snakemake pipelines for nanopore sequencing data archiving and processing
most recent commit 2 years ago
Master_of_pores ⭐ 77
Nextflow pipeline for analysis of direct RNA Nanopore reads
most recent commit a year ago
Ngseasy ⭐ 76
Dockerised Next Generation Sequencing Pipeline (QC, Align, Calling, Annotation)
most recent commit 7 years ago
Neoantigen Vaccine Pipeline ⭐ 72
Bioinformatics pipeline for selecting patient-specific cancer neoantigen vaccines
most recent commit 3 months ago
The 3 Most Depended On Pipeline Sequencing 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
Sequana ⭐ 136
Sequana: a set of Snakemake NGS pipelines
dependent packages 8total releases 90latest release December 06, 2023most recent commit 3 months agopypi sequana} Downloads
Sequencer Js ⭐ 9
Library of sequencing patterns
dependent packages 4total releases 3latest release February 12, 2011most recent commit 3 years agonpm sequencer} Downloads
The 10 Latest Releases In Pipeline Sequencing 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
Sequana ⭐ 136
Sequana: a set of Snakemake NGS pipelines
dependent packages 8total releases 90latest release December 06, 2023most recent commit 3 months agopypi sequana} Downloads
Rnalysis ⭐ 114
RNA sequencing analysis software
total releases 43latest release November 22, 2023most recent commit 3 months ago
Cnvkit ⭐ 435
Copy number variant detection from targeted DNA sequencing
total releases 50latest release February 24, 2023most recent commit 4 months ago
Hic_pipeline ⭐ 40
An easy-to-use Hi-C data processing software supporting distributed computation.
total releases 60latest release January 19, 2023most recent commit a year ago
Cemba_data ⭐ 8
Mapping pipeline for snmC-seq based technologies.
total releases 55latest release November 03, 2022most recent commit a year ago
Pyinseq ⭐ 6
Python pipeline for analyzing INSeq Insertion Sequencing data
total releases 6latest release May 24, 2022most recent commit 2 years ago
Cirrus Ngs ⭐ 5
total releases 1latest release May 25, 2018most recent commit 4 years ago
Fast ⭐ 7
FAST is an Amplicon Sequencing Toolbox v1.2
total releases 4latest release November 08, 2017most recent commit 6 years ago
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