85 results found Sort:

663
2.9k
apache-2.0
89
A DSL for data-driven computational pipelines
Created 2013-03-27
6,884 commits to master branch, last one a day ago
721
984
mit
159
RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.
Created 2018-03-29
5,806 commits to master branch, last one 2 months ago
A curated list of nextflow based pipelines
Created 2015-07-27
152 commits to master branch, last one 2 years ago
A flexible pipeline for complete analysis of bacterial genomes
Created 2019-02-22
1,556 commits to master branch, last one 4 months ago
428
424
mit
134
Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
Created 2019-04-30
7,941 commits to master branch, last one a day ago
A curated collection of Nextflow implementation patterns
Created 2015-02-05
107 commits to master branch, last one about a year ago
752
292
mit
206
Repository to host tool-specific module files for the Nextflow DSL2 community!
Created 2019-07-26
6,878 commits to master branch, last one 16 hours ago
GCP for Bioinformatics Researchers
Created 2019-06-06
1,222 commits to master branch, last one 2 months ago
179
248
mit
137
Single-cell RNA-Seq pipeline for barcode-based protocols such as 10x, DropSeq or SmartSeq, offering a variety of aligners and empty-droplet detection
Created 2019-04-08
1,612 commits to master branch, last one 2 months ago
194
247
mit
150
Python package with helper tools for the nf-core community.
Created 2018-02-13
12,120 commits to main branch, last one 23 days ago
118
228
mit
160
Assembly and binning of metagenomes
Created 2018-05-22
2,574 commits to master branch, last one 6 days ago
Lint, format and auto-fix your Groovy / Jenkinsfile / Gradle files using command line
Created 2020-02-13
443 commits to main branch, last one 2 months ago
149
206
mit
148
ChIP-seq peak-calling, QC and differential analysis pipeline.
Created 2018-04-24
1,835 commits to master branch, last one 4 months ago
125
197
mit
150
ATAC-seq peak-calling and QC analysis pipeline
Created 2018-11-05
1,416 commits to master branch, last one about a year ago
83
192
mit
140
Nanopore demultiplexing, QC and alignment pipeline
Created 2019-09-09
1,587 commits to master branch, last one about a year ago
126
191
mit
151
Amplicon sequencing analysis workflow using DADA2 and QIIME2
Created 2018-09-26
2,541 commits to master branch, last one 3 months ago
75
164
mit
100
Pipeline to fetch metadata and raw FastQ files from public databases
Created 2021-06-03
1,079 commits to master branch, last one 11 months ago
81
159
mit
159
A fully reproducible and state-of-the-art ancient DNA analysis pipeline
Created 2018-06-03
3,271 commits to master branch, last one 7 months ago
149
157
mit
151
Methylation (Bisulfite-Sequencing) analysis pipeline using Bismark or bwa-meth + MethylDackel
Created 2018-03-12
1,691 commits to master branch, last one 2 months ago
26
151
mit
7
Simple test framework for Nextflow pipelines
Created 2021-10-18
391 commits to main branch, last one 2 months ago
104
150
mit
149
RNA-seq analysis pipeline for detection of gene-fusions
Created 2018-10-05
1,913 commits to master branch, last one about a month ago
54
148
mpl-2.0
18
Nextflow Tower system
This repository has been archived (exclude archived)
Created 2019-04-15
873 commits to master branch, last one 20 days ago
139
140
other
11
Nextflow training material
Created 2020-08-27
2,156 commits to master branch, last one 15 hours ago
AWS for Bioinformatics Researchers
Created 2022-03-29
507 commits to main branch, last one 6 months ago
Highly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic data
Created 2022-02-18
2,083 commits to master branch, last one about a month ago
53
132
mpl-2.0
9
GATK RNA-Seq Variant Calling in Nextflow
Created 2017-02-28
171 commits to master branch, last one 3 years ago
117
131
mit
106
Assembly and intrahost/low-frequency variant calling for viral samples
Created 2020-03-30
2,788 commits to master branch, last one about a year ago
VIRify: detection of phages and eukaryotic viruses from metagenomic and metatranscriptomic assemblies
Created 2020-04-29
301 commits to master branch, last one 5 months ago
25
125
apache-2.0
12
The Polygenic Score Catalog Calculator is a nextflow pipeline for polygenic score calculation
Created 2021-10-11
871 commits to main branch, last one 3 months ago
29
124
apache-2.0
21
An app store for scientific workflows, tools, notebooks, and services
Created 2015-04-03
3,906 commits to develop branch, last one 5 days ago