nf-core/rnavar

RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.

RNA-seq analysis pipeline for detection of gene-fusions

rnasplice is a bioinformatics pipeline for RNA-seq alternative splicing analysis

A proof of concept of RNAseq pipeline

Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing

Pipeline to evaluate and validate the accuracy of variant calling methods in genomic research

DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.

Snakemake workflow for highly parallel variant calling designed for ease-of-use in non-model organisms.

A structural variation pipeline for short-read sequencing