Trending repositories for language Nextflow
Methylation (Bisulfite-Sequencing) analysis pipeline using Bismark or bwa-meth + MethylDackel
RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.
Eukaryotic Genome Annotation Pipeline-External caller scripts and documentation
Methylation (Bisulfite-Sequencing) analysis pipeline using Bismark or bwa-meth + MethylDackel
RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.
RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.
Methylation (Bisulfite-Sequencing) analysis pipeline using Bismark or bwa-meth + MethylDackel
Analysis pipeline for CUT&RUN and CUT&TAG experiments that includes QC, support for spike-ins, IgG controls, peak calling and downstream analysis.
Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
AMR++ is a bioinformatic pipeline meant to aid in the analysis of raw sequencing reads to characterize the profile of antimicrobial resistance genes, or resistome.
circRNA quantification, differential expression analysis and miRNA target prediction of RNA-Seq data
A Meta-barcoding pipeline for analysing ONT data in QIIME2 framework
Highly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic data
AMR++ is a bioinformatic pipeline meant to aid in the analysis of raw sequencing reads to characterize the profile of antimicrobial resistance genes, or resistome.
circRNA quantification, differential expression analysis and miRNA target prediction of RNA-Seq data
Analysis pipeline for CUT&RUN and CUT&TAG experiments that includes QC, support for spike-ins, IgG controls, peak calling and downstream analysis.
Methylation (Bisulfite-Sequencing) analysis pipeline using Bismark or bwa-meth + MethylDackel
Eukaryotic Genome Annotation Pipeline-External caller scripts and documentation
A Meta-barcoding pipeline for analysing ONT data in QIIME2 framework
rnasplice is a bioinformatics pipeline for RNA-seq alternative splicing analysis
RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.
Highly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic data
A single cell transcriptomics pipeline for QC, integration and making the data presentable
RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.
Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
Repository to host tool-specific module files for the Nextflow DSL2 community!
Eukaryotic Genome Annotation Pipeline-External caller scripts and documentation
Highly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic data
A single cell transcriptomics pipeline for QC, integration and making the data presentable
The Polygenic Score Catalog Calculator is a nextflow pipeline for polygenic score calculation
Renders a collection of sequences into a pangenome graph. https://doi.org/10.1093/bioinformatics/btae609.
A pipeline to simulate sequencing reads, such as Amplicon, Target Capture, Metagenome, and Whole genome data.
rnasplice is a bioinformatics pipeline for RNA-seq alternative splicing analysis
A pipeline for the analysis of CRISPR edited data. It allows the evaluation of the quality of gene editing experiments using targeted next generation sequencing (NGS) data (`targeted`) as well as the ...
Differential abundance analysis for feature/ observation matrices from platforms such as RNA-seq
Renders a collection of sequences into a pangenome graph. https://doi.org/10.1093/bioinformatics/btae609.
Nextflow pipeline to analyze PacBio HiFi full-length 16S data
Highly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic data
A Nextflow workflow to generate lift over files for any pair of genomes
Pipeline for processing spatially-resolved gene counts with spatial coordinates and image data. Designed for 10x Genomics Visium transcriptomics.
Pipeline to fetch metadata and raw FastQ files from public databases
Repository to host tool-specific module files for the Nextflow DSL2 community!