xguse / cookiecutter-snakemake-analysis-pipelineView external linksLinks
A cookiecutter template that reflects my favored structure for setting up Snakemake-based analysis pipelines.
☆16Jul 25, 2016Updated 9 years ago
Alternatives and similar repositories for cookiecutter-snakemake-analysis-pipeline
Users that are interested in cookiecutter-snakemake-analysis-pipeline are comparing it to the libraries listed below
Sorting:
- Extracting mutational signatures via LASSO. The manuscript of the method is published on PLOS Computational Biology and available at: htt…☆11Oct 15, 2025Updated 4 months ago
- This repository contains the source code of the revised version of MutPanning. MutPanning is publicly available under the BSD3-Clause ope…☆13Nov 12, 2019Updated 6 years ago
- PePPer - Personalized Perturbation Profiler☆11Oct 4, 2018Updated 7 years ago
- materials and website for the 2016 kallisto sleuth workshop☆11Nov 7, 2016Updated 9 years ago
- Flexible linear mixed model framework for Genome Wide Association Studies☆18Nov 6, 2025Updated 3 months ago
- Tutorial with snakemake and Scientific Filesystem☆16Nov 11, 2020Updated 5 years ago
- [DEPRECATED] - A GA4GH Task Execution Service (TES) compatible implementation for Azure Compute☆18Sep 29, 2023Updated 2 years ago
- Javascript library for visualizing genomics data with D3.☆19Jan 6, 2017Updated 9 years ago
- Work for the tree sequence inference paper.☆23Oct 19, 2020Updated 5 years ago
- Learn tissue-specificity and tissue-sharing of genetic regulation across 49 tissues using constraint matrix factorization model☆22Oct 9, 2020Updated 5 years ago
- Analysis of inference methods on standard population models☆25Dec 3, 2021Updated 4 years ago
- Software for predicting translation initiation rates in bacteria☆31Jul 30, 2025Updated 6 months ago
- Python API for Xena Hub☆55May 2, 2023Updated 2 years ago
- A cookiecutter template for Snakemake workflows☆60Feb 2, 2022Updated 4 years ago
- paplot creates various dynamic and interactive reports for cancer genome analysis.☆26Feb 1, 2023Updated 3 years ago
- Project Manager for NGS data analysis☆31Jan 27, 2026Updated 2 weeks ago
- Lint Nextflow pipelines in Python.☆11Jan 23, 2025Updated last year
- DeepContact Software☆26Jun 16, 2018Updated 7 years ago
- A genome browser in your Jupyter notebook☆31May 12, 2025Updated 9 months ago
- ☆36Jun 2, 2025Updated 8 months ago
- processes GoT amplicon data and generates a table of metrics☆32Jun 24, 2022Updated 3 years ago
- GPU accelerated GWAS framework based on TensorFlow☆33Jul 6, 2023Updated 2 years ago
- Reference genome resource manager☆74Updated this week
- Pipeline for computing OTU tables from 16S or ITS amplicon sequencing data.☆33Jun 18, 2023Updated 2 years ago
- Flexible Bayesian inference of mutational signatures☆41Jan 30, 2023Updated 3 years ago
- Clonal reconstruction from HTS data☆10Oct 27, 2021Updated 4 years ago
- Genome scale metabolic models in SBML format☆10Nov 16, 2021Updated 4 years ago
- jinja2-enabled jupyter notebooks☆37Feb 9, 2026Updated last week
- Automated pipeline for amplicon sequence analysis☆11Nov 25, 2025Updated 2 months ago
- This repository contains the installation zip file, user manual, example data, and source code for the PyXlinkViewer plugin for PyMOL v2☆10Jul 3, 2023Updated 2 years ago
- Pdfs of slides from 2018 popgen course☆36Dec 7, 2018Updated 7 years ago
- Cython bindings and Python interface to FAMSA, an algorithm for ultra-scale multiple sequence alignments.☆37Jan 5, 2026Updated last month
- A toolkit for training deep learning models on genotype, tabular, sequence, image, array and binary data.☆42Jan 5, 2026Updated last month
- R package for extracting mutation signatures from a list of somatic mutations☆37Aug 9, 2019Updated 6 years ago
- Screen interactions with AlphaFold Multimer☆13Mar 10, 2025Updated 11 months ago
- A collection of tools that generate and analyse side-chain rotamer libraries☆10Updated this week
- GLEE: Geometric Laplacian Eigenmap Embedding☆11Mar 7, 2020Updated 5 years ago
- E(3) equivariant graph neural network for PPI site prediction☆10Sep 18, 2023Updated 2 years ago
- Harnessing FABRIC for Scalable Human Genome Sequence Analysis☆12Feb 7, 2026Updated last week