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The Top 23 Pipeline Bioinformatics Nextflow Open Source Projects

Open source projects categorized as Pipeline Bioinformatics Nextflow
Categories > Data Processing > Bioinformatics
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
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
Mag ⭐ 164
Assembly and binning of metagenomes
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
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
Taxprofiler ⭐ 78
Highly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic data
most recent commit 3 months ago
Callings Nf ⭐ 76
GATK RNA-Seq Variant Calling in Nextflow
most recent commit 3 years ago
Configs ⭐ 73
Config files used to define parameters specific to compute environments at different Institutions
most recent commit 3 months ago
Funcscan ⭐ 49
(Meta-)genome screening for functional and natural product gene sequences
most recent commit 3 months ago
Ngi Rnaseq ⭐ 49
Nextflow RNA-Seq Best Practice analysis pipeline, used at the SciLifeLab National Genomics Infrastructure.
most recent commit 6 years ago
Iarc Nf ⭐ 35
List of IARC bioinformatics nextflow pipelines
most recent commit a year ago
Spatialtranscriptomics ⭐ 34
Pipeline for processing spatially-resolved gene counts with spatial coordinates and image data. Designed for 10x Genomics Visium transcriptomics.
most recent commit 3 months ago
Circrna ⭐ 32
circRNA quantification, differential expression analysis and miRNA target prediction of RNA-Seq data
most recent commit 3 months ago
Epitopeprediction ⭐ 28
A bioinformatics best-practice analysis pipeline for epitope prediction and annotation
most recent commit 3 months ago
Pipeliner ⭐ 25
A flexible Nextflow-based framework for the definition of sequencing data processing pipelines
most recent commit 4 years ago
Ngs Preprocess ⭐ 23
A pipeline for preprocessing NGS data from Illumina, Nanopore and PacBio technologies
most recent commit 3 months ago
Bionextflow ⭐ 22
A collection of modules and sub-workflows for Nextflow
most recent commit 3 months ago
Companion ⭐ 19
Pipeline for automatic eukaryotic parasite annotation
most recent commit 3 years ago
Cookiecutter ⭐ 18
DEPRECIATED! Please use nf-core/tools instead
most recent commit 6 years ago
Gatk4_best_practice ⭐ 18
GATK4 Best Practice Nextflow Pipeline
most recent commit 6 years ago
Bactpipe ⭐ 17
BACTpipe: An assembly and annotation pipeline for bacterial genomics
most recent commit 2 years ago
The 2 Most Depended On Pipeline Bioinformatics 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
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 2 Latest Releases In Pipeline Bioinformatics 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
Nextflow ⭐ 2,447
A DSL for data-driven computational pipelines
dependent packages 16total releases 250latest release November 24, 2023most recent commit 3 months ago
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