Top workflows by tests

ziyaipek

snakemake

No description available.

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Updated: 2025-10-17 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: 2025-10-16 Release: v3.0.0formatting: passedlinting: passed

68 stars

3 watchers

snakemake-workflows

cellranger-count

A Snakemake workflow for counting single cell RNAseq (scRNA-seq) data with Cell Ranger (Cell Ranger …

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Updated: 2025-10-14 Release: v1.0.1formatting: passedlinting: passed

0 stars

0 watchers

snakemake-workflows

effect-size-estimation

Generic, uncertainty aware, parameter free effect size estimation

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Updated: 2025-10-10 Release: v1.0.0formatting: passedlinting: passed

0 stars

1 watchers

niekwit

smallRNA-seq

Snakemake workflow for small RNA-seq analysis

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Updated: 2025-10-10 Release: Noneformatting: passedlinting: passed

1 stars

0 watchers

calliope-project

module_geo_boundaries

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

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Updated: 2025-10-07 Release: v0.1.6formatting: passedlinting: passed

0 stars

2 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: 2025-10-02 Release: v1.0.0formatting: passedlinting: passed

18 stars

12 watchers

MPUSP

snakemake-simple-mapping

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

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Updated: 2025-09-25 Release: v1.4.1formatting: passedlinting: passed

1 stars

1 watchers

mdondrup

gromacs_workflow

No description available.

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Updated: 2025-09-18 Release: Noneformatting: passedlinting: passed

0 stars

0 watchers

mdondrup

sealice_assemblies

No description available.

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Updated: 2025-09-16 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: 2025-09-16 Release: v0.10.0formatting: passedlinting: passed

6 stars

4 watchers

snakemake-workflows

rna-seq-star-deseq2

RNA-seq workflow using STAR and DESeq2

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Updated: 2025-09-14 Release: v3.1.0formatting: passedlinting: passed

346 stars

12 watchers

MPUSP

snakemake-ont-basecalling

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

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Updated: 2025-09-12 Release: v1.4.0formatting: passedlinting: passed

4 stars

2 watchers

KasperSkytte

snakemake_usearch

Simple snakemake workflow based on the usearch11 SOP

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Updated: 2025-09-05 Release: v1.1.2formatting: passedlinting: passed

0 stars

1 watchers

EloiseIsobelPearce

snakemake-example

During my time at Esox Biologics, I became confident using Snakemake to create streamlined MAG-assem…

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Updated: 2025-09-04 Release: Noneformatting: passedlinting: passed

0 stars

0 watchers