snakemake
Here are 377 public repositories matching this topic...
PyPSA-Eur: A Sector-Coupled Open Optimisation Model of the European Energy System
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May 25, 2024 - Python
RNA-seq workflow using STAR and DESeq2
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Mar 25, 2024 - Python
This Snakemake pipeline implements the GATK best-practices workflow
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Jun 8, 2023 - Python
ATLAS - Three commands to start analyzing your metagenome data
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Apr 29, 2024 - Python
A Snakemake workflow for differential expression analysis of RNA-seq data with Kallisto and Sleuth.
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May 24, 2024 - Python
A robust, extensible metagenomics pipeline
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Apr 23, 2024 - Python
🐍 Snakefiles for common RNA-seq data analysis workflows (STAR and Kallisto).
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Jul 18, 2017 - Python
💎 An easy-to-use workflow for generating context specific genome-scale metabolic models and predicting metabolic interactions within microbial communities directly from metagenomic data
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Jan 12, 2024 - Python
A cookiecutter template for Snakemake workflows
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Feb 2, 2022 - Python
A Snakemake workflow for calling small and structural variants under any kind of scenario (tumor/normal, tumor/normal/relapse, germline, pedigree, populations) via the unified statistical model of Varlociraptor.
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May 23, 2024 - Python
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.
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Feb 16, 2024 - Python
Automated and customizable preprocessing of Next-Generation Sequencing data, including full (sc)ATAC-seq, ChIP-seq, and (sc)RNA-seq workflows. Works equally easy with public as local data.
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Feb 5, 2024 - Python
The uncompromising Snakemake code formatter
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May 21, 2024 - Python
Snakemake-based workflow for detecting structural variants in genomic data
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Feb 13, 2024 - Python
Snakemake profile for running jobs on an LSF cluster
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Aug 10, 2023 - Python
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