The uncompromising Snakemake code formatter
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Updated
Jun 18, 2024 - Python
The uncompromising Snakemake code formatter
Clinical Whole Genome and Exome Sequencing Pipeline
PyPSA-Eur: A Sector-Coupled Open Optimisation Model of the European Energy System
This is the development home of the workflow management system Snakemake. For general information, see
A reproducible and scalable snakemake workflow for the analysis of DNA metabarcoding experiments, with a special focus on food and feed samples.
HBVouroboros automates sequencing-based HBV genotyping and expression profiling
🦠📇 Genomes to report pipeline - for bacteria and archaea
Snakemake workflow for Illumina RNA-sequencing experiments - extract population genomic signals from RNA-Seq data
Estimación de turbidez en el agua a la entrada de la planta de tratamiento de SAMEEP, utilizando los productos Sentinel-2 MSI L2A y aprendizaje automático.
Pipelines dealing with high throughput sequencing data for microbiology diagnostic procedures. Documentation available at http://metagenlabdiag-pipelines.readthedocs.io/en/latest/ and Docker images at https://hub.docker.com/r/metagenlab/diag_pipelines/.
A Snakemake workflow for single copy gene, transposable elements and tRNA expression analysis
Tibanna helps you run your genomic pipelines on Amazon cloud (AWS). It is used by the 4DN DCIC (4D Nucleome Data Coordination and Integration Center) to process data. Tibanna supports CWL/WDL (w/ docker), Snakemake (w/ conda) and custom Docker/shell command.
Technology-invariant pipeline for spatial omics analysis (Xenium / MERSCOPE / CosMx / PhenoCycler / MACSima / Hyperion) that scales to millions of cells
A general purpose Snakemake workflow to perform unsupervised analyses (dimensionality reduction & cluster analysis) and visualizations of high-dimensional data.
Snakemake workflow used to call germline and/or somatic variants with GATK Mutect2
A Snakemake workflow for differential expression analysis of RNA-seq data with Kallisto and Sleuth.
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