Baltica: integrated differential junction usage

This is the development home of the workflow management system Snakemake. For general information, see

A Snakemake workflow for differential expression analysis of RNA-seq data with Kallisto and Sleuth.

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

This package provides a stable interface for interactions between Snakemake and its executor plugins.

Copy number variant detection from targeted DNA sequencing

A collection of resources for data scientists (not only) in bioinformatics

Snakemake profile for running jobs on an LSF cluster

Pipeline for differential gene expression (DGE) and differential transcript usage (DTU) analysis using long reads

Script to add flashcards from text/markdown files to Anki

A pipeline to transfer the Nanopore reads to end users

APA target caller - derived from the exar2020 paper

A pipeline to annotate miRNAs, phased siRNAs and other types using a reference genome and experimental sRNA-Seq data

Tools for handling Unique Molecular Identifiers in NGS data sets

A static website and blog generator

Create an Illumina Sample Sheet, the comma-separated text document required by Illumina sequencing systems to specify (1) sequencing parameters and (2) sample-barcode relationships. Customize [Head…

A permissively licensed library designed to replace Illumina's Experiment Manager

RNA-seq workflow using STAR and DESeq2

Conda recipes for the bioconda channel.