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Workflow overview

Our workflows, sorted by number of stars.

Pipeline for automatic processing and quality control of mass spectrometry data

A Snakemake workflow for the design of small guide RNAs (sgRNAs) for CRISPR applications.

A Snakemake workflow for the identification of variants in bacterial genomes using nanopore long-read sequencing.

Bacterial-Riboseq: A Snakemake workflow for the analysis of riboseq data in bacteria.

A Snakemake workflow for the processing of short read rnaseq data in bacteria.

Differential gene expression analysis with deseq2

A Snakemake workflow for basecalling and demultiplexing of Oxford Nanopore data using Dorado.

A Snakemake workflow for the mapping of reads to reference genomes, minimalistic and simple.

A Snakemake workflow for the post-processing of microbial genome assemblies.