Top workflows by tests

aryazand

rnaseq_to_genome_annotation

Use RNA-seq data to annotate genome

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Updated: 2026-01-02 Release: Noneformatting: passedlinting: passed

0 stars

0 watchers

zavolanlab

mirflowz

Snakemake workflow for the mapping and quantification of miRNAs and isomiRs from miRNA-Seq libraries…

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Updated: 2026-01-02 Release: v0.10.0formatting: passedlinting: passed

6 stars

4 watchers

KasperSkytte

snakemake_usearch

Simple snakemake workflow based on the usearch11 SOP

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Updated: 2025-12-18 Release: v1.2.0formatting: passedlinting: passed

0 stars

1 watchers

MPUSP

snakemake-simple-mapping

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

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Updated: 2025-12-18 Release: v1.5.0formatting: passedlinting: passed

1 stars

1 watchers

snakemake-workflows

rna-seq-star-deseq2

RNA-seq workflow using STAR and DESeq2

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Updated: 2025-12-18 Release: v3.1.1formatting: passedlinting: passed

350 stars

12 watchers

calliope-project

module_euro_industry

No description available.

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Updated: 2025-12-18 Release: Noneformatting: passedlinting: passed

0 stars

0 watchers

snakemake-workflows

rna-seq-kallisto-sleuth

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

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Updated: 2025-12-18 Release: v4.0.0formatting: passedlinting: passed

68 stars

3 watchers

fcaretti

SNPs_from_RNA

A Snakemake workflow to call variants (SNPs) from bulk RNA-seq samples

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Updated: 2025-12-11 Release: v1.0.0formatting: passedlinting: passed

1 stars

1 watchers

MPUSP

snakemake-assembly-postprocessing

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

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Updated: 2025-12-10 Release: v1.1.0formatting: passedlinting: passed

1 stars

0 watchers

LiaOb21

FSP_assembly_benchmarking

No description available.

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Updated: 2025-12-09 Release: v_2.0.0formatting: passedlinting: passed

1 stars

0 watchers

MPUSP

snakemake-ont-basecalling

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

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Updated: 2025-12-03 Release: v1.5.1formatting: passedlinting: passed

4 stars

2 watchers

calliope-project

module_geo_boundaries

A module to create arbitrary regional boundary datasets for energy systems modelling

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Updated: 2025-12-02 Release: v0.1.6formatting: passedlinting: passed

1 stars

2 watchers

snakemake-workflows

effect-size-estimation

Generic, uncertainty aware, parameter free effect size estimation

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Updated: 2025-12-01 Release: v1.2.1formatting: passedlinting: passed

0 stars

1 watchers

dlaehnemann

filter-non-coding-variants-with-optimized-cadd-thresholds

A standardized snakemake workflow for annotating variants with CADD scores and filtering non-coding …

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Updated: 2025-11-28 Release: Noneformatting: passedlinting: passed

0 stars

0 watchers

tucca-cellag

tucca-rna-seq

TUCCA’s RNA-Seq Workflow for Read Quantification, Differential Expression, and Pathway Enrichment An…

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Updated: 2025-11-26 Release: v1.0.0formatting: passedlinting: passed

18 stars

12 watchers