Workflow overview

Our workflows, sorted by number of stars.

MPUSP/snakemake-ms-proteomics

last update: 2026-01-09

Pipeline for automatic processing and quality control of mass spectrometry data

workflow pagegithub

MPUSP/snakemake-crispr-guides

last update: 2025-12-19

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

workflow pagegithub

MPUSP/snakemake-ont-bacterial-variants

last update: 2025-12-12

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

workflow pagegithub

MPUSP/snakemake-bacterial-riboseq

last update: 2025-06-11

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

workflow pagegithub

MPUSP/snakemake-ont-basecalling

last update: 2026-01-08

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

workflow pagegithub

MPUSP/snakemake-simple-mapping

last update: 2025-12-18

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

workflow pagegithub

MPUSP/snakemake-assembly-postprocessing

last update: 2025-12-10

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

workflow pagegithub