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

A flexible pipeline for complete analysis of bacterial genomes

A curated collection of Nextflow implementation patterns

Assembly and binning of metagenomes

Nextflow pipeline for analysis of direct RNA Nanopore reads

Example Nextflow pipelines and programming techniques

A flexible Nextflow-based framework for the definition of sequencing data processing pipelines