Top workflows by tests

snakemake-workflows

snakemake-workflow-template

A template for standard compliant snakemake-workflows

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Updated: 2025-07-26 Release: Noneformatting: passedlinting: passed

107 stars

2 watchers

StergachisLab

IsoSeq_smk

Pipeline for MAS-Seq processing

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Updated: 2025-07-25 Release: Noneformatting: passedlinting: passed

6 stars

5 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: 2025-07-23 Release: v3.0.0formatting: passedlinting: passed

68 stars

4 watchers

snakemake-workflows

dna-seq-benchmark

A snakemake workflow for benchmarking variant calling approaches with Genome in a Bottle (GIAB), CHM…

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Updated: 2025-07-14 Release: v1.12.2formatting: passedlinting: passed

12 stars

1 watchers

r1cheu

gnnotator

genome annotation workflow

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Updated: 2025-07-14 Release: v0.1.0formatting: passedlinting: passed

0 stars

0 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: 2025-07-11 Release: v1.0.0formatting: passedlinting: passed

0 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: 2025-07-09 Release: v0.1.3formatting: passedlinting: passed

0 stars

2 watchers

calliope-project

module_hydropower

No description available.

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Updated: 2025-07-09 Release: v0.1.1formatting: passedlinting: passed

0 stars

2 watchers

MPUSP

snakemake-ont-basecalling

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

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Updated: 2025-07-09 Release: v1.3.0formatting: passedlinting: passed

4 stars

2 watchers

calliope-project

module_road_transport

A module to compute road transport timeseries and yearly values.

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Updated: 2025-07-08 Release: Noneformatting: passedlinting: passed

0 stars

0 watchers

tdayris

fair_genome_indexer

Download and index Ensembl sequences and annotations, remove non-canonical chromosimes, remove low T…

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Updated: 2025-07-01 Release: 3.10.0formatting: passedlinting: passed

0 stars

1 watchers

EloiseEsox

snakemake

No description available.

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Updated: 2025-06-27 Release: Noneformatting: passedlinting: passed

0 stars

0 watchers

IKIM-Essen

metagenomics_res

No description available.

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Updated: 2025-06-26 Release: Noneformatting: passedlinting: passed

1 stars

1 watchers

SveTho

base

No description available.

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Updated: 2025-06-25 Release: Noneformatting: passedlinting: passed

0 stars

0 watchers

kircherlab

MPRAsnakeflow

With this snakemake pipeline you can process your MPRA sequencing data (assignment and count). It is…

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Updated: 2025-06-25 Release: v0.5.4formatting: passedlinting: passed

6 stars

1 watchers