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The Top 23 Pipeline Nextflow Open Source Projects

Open source projects categorized as Pipeline Nextflow
Categories > Nextflow
Categories > Data Processing > Pipeline
Nextflow ⭐ 2,447
A DSL for data-driven computational pipelines
dependent packages 16total releases 250most recent commit 3 months ago
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
Awesome Nextflow ⭐ 448
A curated list of nextflow based pipelines
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
Bactopia ⭐ 281
A flexible pipeline for complete analysis of bacterial genomes
most recent commit 7 months ago
Flowcraft ⭐ 234
FlowCraft: a component-based pipeline composer for omics analysis using Nextflow. 🐳📦
total releases 18most recent commit 4 years 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
Modules ⭐ 180
Repository to host tool-specific module files for the Nextflow DSL2 community!
most recent commit 3 months ago
Mag ⭐ 164
Assembly and binning of metagenomes
most recent commit 3 months ago
Atacseq ⭐ 145
ATAC-seq peak-calling and QC analysis pipeline
most recent commit 8 months ago
Chipseq ⭐ 144
ChIP-seq peak-calling, QC and differential analysis pipeline.
most recent commit a year ago
Ampliseq ⭐ 141
Amplicon sequencing analysis workflow using DADA2 and QIIME2
most recent commit 3 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
Nanoseq ⭐ 122
Nanopore demultiplexing, QC and alignment pipeline
most recent commit 6 months ago
Methylseq ⭐ 121
Methylation (Bisulfite-Sequencing) analysis pipeline using Bismark or bwa-meth + MethylDackel
most recent commit 3 months ago
Rnafusion ⭐ 120
RNA-seq analysis pipeline for detection gene-fusions
most recent commit 4 months ago
Scrnaseq ⭐ 119
A single-cell RNAseq pipeline for 10X genomics data
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
Viralrecon ⭐ 101
Assembly and intrahost/low-frequency variant calling for viral samples
most recent commit 7 months ago
Emg Viral Pipeline ⭐ 98
VIRify: detection of phages and eukaryotic viruses from metagenomic and metatranscriptomic assemblies
most recent commit 7 months ago
Fetchngs ⭐ 93
Pipeline to fetch metadata and raw FastQ files from public and private databases
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
Mcmicro ⭐ 92
Multiple-choice microscopy pipeline
most recent commit 3 months ago
The 4 Most Depended On Pipeline Nextflow Open Source Projects
Nextflow ⭐ 2,447
A DSL for data-driven computational pipelines
dependent packages 16total releases 250latest release November 24, 2023most recent commit 3 months ago
Nextflow.py ⭐ 46
Python wrapper around Nextflow.
dependent packages 3total releases 22latest release October 16, 2023most recent commit 5 months agopypi nextflow} 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
Pytest Workflow ⭐ 52
Configure workflow/pipeline tests using yaml files.
dependent packages 1total releases 18latest release January 13, 2023most recent commit 8 months agopypi pytest-workflow} Downloads
The 8 Latest Releases In Pipeline Nextflow 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
Monsda ⭐ 10
MONSDA, Modular Organizer of Nextflow and Snakemake driven hts Data Analysis
total releases 14latest release November 26, 2023most recent commit 5 months ago
Nextflow ⭐ 2,447
A DSL for data-driven computational pipelines
dependent packages 16total releases 250latest release November 24, 2023most recent commit 3 months ago
Nextflow.py ⭐ 46
Python wrapper around Nextflow.
dependent packages 3total releases 22latest release October 16, 2023most recent commit 5 months agopypi nextflow} Downloads
Pytest Workflow ⭐ 52
Configure workflow/pipeline tests using yaml files.
dependent packages 1total releases 18latest release January 13, 2023most recent commit 8 months agopypi pytest-workflow} Downloads
Micone ⭐ 15
The Microbial Co-occurrence Network Explorer
total releases 20latest release April 05, 2022most recent commit 7 months ago
Maliampi ⭐ 19
Maximum Likelihood Amplicon Pipeline
total releases 1latest release April 19, 2019most recent commit 7 months ago
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