A cookiecutter template that reflects my favored structure for setting up Snakemake-based analysis pipelines.
☆16Jul 25, 2016Updated 10 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. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Tutorial with snakemake and Scientific Filesystem☆16Nov 11, 2020Updated 5 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☆18Jun 9, 2026Updated last month
- A cookiecutter template for Snakemake workflows☆60Feb 2, 2022Updated 4 years ago
- Extracting mutational signatures via LASSO. The manuscript of the method is published on PLOS Computational Biology and available at: htt…☆11Apr 7, 2026Updated 3 months ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- Crash Course on Approximate Bayesian Computation in Population Genetics☆11Sep 19, 2022Updated 3 years ago
- A software for haplotype inference☆13May 13, 2025Updated last year
- the toolbox for Microbial and personalized GEM, REactiobiome and community NEtwork modelling☆11Feb 3, 2024Updated 2 years ago
- This repository contains the source code of the revised version of MutPanning. MutPanning is publicly available under the BSD3-Clause ope…☆14Nov 12, 2019Updated 6 years ago
- Automated pipeline for amplicon sequence analysis☆11Nov 25, 2025Updated 8 months ago
- ABC random forests for model choice and parameter estimation, pure C++ implementation☆10Oct 7, 2024Updated last year
- Genome scale metabolic models in SBML format☆11Nov 16, 2021Updated 4 years ago
- A snakemake workflow for benchmarking variant calling approaches with Genome in a Bottle (GIAB), CHM (syndip) or other custom datasets☆13Jul 15, 2026Updated 2 weeks ago
- Javascript library for visualizing genomics data with D3.☆19Jan 6, 2017Updated 9 years ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- Template scripts to setup Docker Images compatible with running on MNP Batch☆15Apr 9, 2019Updated 7 years ago
- Work for the tree sequence inference paper.☆23Oct 19, 2020Updated 5 years ago
- [DEPRECATED] - A GA4GH Task Execution Service (TES) compatible implementation for Azure Compute☆18Sep 29, 2023Updated 2 years ago
- PePPer - Personalized Perturbation Profiler☆11Oct 4, 2018Updated 7 years ago
- Scripts☆10Jun 29, 2016Updated 10 years ago
- libstrbuf: A powerful string library for C☆17Oct 15, 2016Updated 9 years ago
- Project Manager for NGS data analysis☆31Jul 10, 2026Updated 2 weeks ago
- Collaborative and Reproducible Data Science in R☆33Dec 10, 2020Updated 5 years ago
- ☆11Mar 8, 2026Updated 4 months ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- Lesson for the shell for genomics☆11Jan 12, 2021Updated 5 years ago
- A Snakefile to parallelize bwa.☆13Oct 25, 2013Updated 12 years ago
- A collection of tools to work with Illumina's basespace☆13Apr 10, 2019Updated 7 years ago
- Python package for creating, calibrating and simulating RBA models☆14Apr 8, 2026Updated 3 months ago
- Software for predicting translation initiation rates in bacteria☆34Jul 30, 2025Updated 11 months ago
- ☆11Oct 21, 2023Updated 2 years ago
- Cool Bioinformatics Scripts☆12May 21, 2024Updated 2 years ago
- Muller diagrams excel at visualizing evolutionary dynamics of a population over time. A common use case, and the intended use case durin…☆15Oct 13, 2020Updated 5 years ago
- Microsoft Azure HPC & Big Compute☆15Aug 18, 2019Updated 6 years ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- ☆16Sep 8, 2021Updated 4 years ago
- A pure-Python count-min sketch, fast and accurate.☆16May 21, 2017Updated 9 years ago
- ☆13Jan 8, 2020Updated 6 years ago
- Collection of simple C scripts for parsing vcf or bam files using the htslib C library. These scripts can be used as the starting point f…☆11Dec 11, 2020Updated 5 years ago
- Open source map editor for The Battle of Polytopia☆20Sep 28, 2025Updated 10 months ago
- JBrowse plugin that supports smallRNA alignments☆12Apr 8, 2019Updated 7 years ago
- Misc. utilities☆11May 21, 2019Updated 7 years ago