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nf-core/rnaseq
RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.
nextflow
pipeline
workflow
nf-core
+ 2 more
786
198 KB
Updated 7 months ago
Launch
nf-core/sarek
Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
nextflow
pipeline
workflow
nf-core
+ 16 more
340
470 KB
Updated 7 months ago
Launch
nf-core/mag
Assembly and binning of metagenomes
nextflow
pipeline
workflow
nf-core
+ 9 more
182
260 KB
Updated 8 months ago
Launch
nf-core/chipseq
ChIP-seq peak-calling, QC and differential analysis pipeline.
nextflow
pipeline
workflow
nf-core
+ 5 more
173
155 KB
Updated 7 months ago
Launch
nf-core/scrnaseq
A single-cell RNAseq pipeline for 10X genomics data
nextflow
pipeline
workflow
nf-core
+ 9 more
169
127 KB
Updated 7 months ago
Launch
nf-core/atacseq
ATAC-seq peak-calling and QC analysis pipeline
nextflow
pipeline
workflow
nf-core
+ 2 more
161
198 KB
Updated 7 months ago
Launch
nf-core/ampliseq
Amplicon sequencing analysis workflow using DADA2 and QIIME2
nextflow
pipeline
workflow
nf-core
+ 15 more
157
450 KB
Updated 7 months ago
Launch
nf-core/nanoseq
Nanopore demultiplexing, QC and alignment pipeline
nextflow
pipeline
workflow
nf-core
+ 4 more
144
161 KB
Updated 7 months ago
Launch
nf-core/rnafusion
RNA-seq analysis pipeline for detection of gene-fusions
nextflow
pipeline
workflow
nf-core
+ 5 more
130
105 KB
Updated 7 months ago
Launch
nf-core/methylseq
Methylation (Bisulfite-Sequencing) analysis pipeline using Bismark or bwa-meth + MethylDackel
nextflow
pipeline
workflow
nf-core
+ 8 more
130
127 KB
Updated 7 months ago
Launch
nf-core/fetchngs
Pipeline to fetch metadata and raw FastQ files from public databases
nextflow
pipeline
workflow
nf-core
+ 7 more
125
76 KB
Updated 7 months ago
Launch
nf-core/viralrecon
Assembly and intrahost/low-frequency variant calling for viral samples
nextflow
pipeline
workflow
nf-core
+ 15 more
108
214 KB
Updated 7 months ago
Launch
PGScatalog/pgsc_calc
The Polygenic Score Catalog Calculator is a nextflow pipeline for polygenic score calculation
nextflow
workflow
polygenic-scores
polygenic-risk-scores
+ 6 more
96
133 KB
Updated 7 months ago
Launch
nf-core/taxprofiler
Highly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic data
nextflow
pipeline
workflow
nf-core
+ 12 more
92
221 KB
Updated 7 months ago
Launch
epi2me-labs/wf-human-variation
79
192 KB
Updated 7 months ago
Launch
nf-core/raredisease
Call and score variants from WGS/WES of rare disease patients.
nextflow
pipeline
workflow
nf-core
+ 8 more
72
374 KB
Updated 7 months ago
Launch
nf-core/smrnaseq
A small-RNA sequencing analysis pipeline
nextflow
pipeline
workflow
nf-core
+ 2 more
68
133 KB
Updated 7 months ago
Launch
epi2me-labs/wf-single-cell
65
82 KB
Updated 7 months ago
Launch
nf-core/cutandrun
Analysis pipeline for CUT&RUN and CUT&TAG experiments that includes QC, support for spike-ins, IgG controls, peak calling and downstream analysis.
nextflow
pipeline
workflow
nf-core
+ 4 more
65
240 KB
Updated 7 months ago
Launch
epi2me-labs/wf-transcriptomes
63
74 KB
Updated 7 months ago
Launch