This is a beginner's tutorial to Snakemake
☆69Mar 21, 2016Updated 10 years ago
Alternatives and similar repositories for SandwichesWithSnakemake
Users that are interested in SandwichesWithSnakemake are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Snakemake library for bioinformatics programs, with a focus on next-generation sequencing☆22Feb 4, 2016Updated 10 years ago
- Common Snakemake rules and workflows mainly directed towards Metagenomic analysis.☆20Nov 15, 2018Updated 7 years ago
- Making Snakemake workflows into full-fledged command line tools since 1999.☆51Apr 19, 2018Updated 8 years ago
- Wrappers around NGS peak callers to both call peaks and run IDR☆11Aug 2, 2013Updated 13 years ago
- AXIOME - Automation, Extension, and Integration Of Microbial Ecology: Helper tools to make managing numerical ecology pipelines easier☆13Jun 20, 2014Updated 12 years ago
- End-to-end encrypted email - Proton Mail • AdSpecial offer: 40% Off Yearly / 80% Off First Month. All Proton services are open source and independently audited for security.
- A DRAFT, early stage book on snakemake.☆25Nov 1, 2023Updated 2 years ago
- An experimental repo for common snakemake rules and workflows☆44Mar 17, 2015Updated 11 years ago
- A Snakefile to parallelize bwa.☆13Oct 25, 2013Updated 13 years ago
- RNA-Seq Snakemake example with Jekyll homepage creation☆20Feb 20, 2014Updated 12 years ago
- A simple variant calling and annotation pipeline using BWA, GATK and ENSEMBL.☆14Nov 29, 2013Updated 12 years ago
- R function to plot high quality, elegant heatmap using 'ggplot2' graphics . Some of the important features of this package are, colorin…☆11Apr 19, 2016Updated 10 years ago
- Very simple, pure python, BAM file reader☆80Feb 20, 2019Updated 7 years ago
- An introduction to the LSF Job Scheduler☆17Feb 26, 2016Updated 10 years ago
- A nextflow implementation of Kallisto & Sleuth RNA-Seq Tools☆24Jun 3, 2018Updated 8 years ago
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- Exposing public genomics data via computable and searchable metadata☆13Jul 9, 2024Updated 2 years ago
- Set of tools for viral metagenomics.☆18Aug 17, 2026Updated 2 months ago
- Transcript quantification import for modular pipelines☆146Sep 28, 2026Updated last month
- Scripts and notebooks for models that enable better causal inferences in psychological sciences☆11Dec 24, 2024Updated last year
- Streaming relation (overlap, distance, KNN) of (any number of) sorted genomic interval sets. #golang☆46Jun 16, 2026Updated 4 months ago
- Pretty, simple, optionally interactive plots for bioinformatics analysis pipelines☆14Mar 1, 2023Updated 3 years ago
- Drug Resistance Prediction with Reference Graphs☆21Oct 23, 2025Updated last year
- Romulus: Robust multi-state identification of transcription factor binding sites from DNase-seq data☆10Mar 6, 2019Updated 7 years ago
- Continuous administration of the Greene Lab's electronic scrum☆13Updated this week
- 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.
- Run Picard on BAM files and collate 90 metrics into one file.☆40Sep 27, 2017Updated 9 years ago
- BioMAJ☆14Sep 13, 2024Updated 2 years ago
- Human transcription factor target genes from 6 databases in convenient R format.☆89Oct 4, 2018Updated 8 years ago
- Support material for the "Comparative Genomics Laboratory" classes of the MSc in Biodiversity and Evolution at the University of Bologna.☆21Oct 12, 2026Updated 2 weeks ago
- Creates a rarefaction curve to measure complexity in RNA Seq data using start position☆13Apr 2, 2017Updated 9 years ago
- Improvement of metagenome-assembled genomes☆59Mar 17, 2020Updated 6 years ago
- Strain resolved metagenome simulator☆13Aug 11, 2018Updated 8 years ago
- Computes a consensus sequence with wobbles, ambiguous bases, and in-frame insertions, from a NGS read alignment.☆18May 14, 2018Updated 8 years ago
- EnsembleAssembler performs de novo assembly of pathogen genomes from metagenomic samples sequenced using Illumina platforms☆10Nov 30, 2014Updated 11 years ago
- Serverless GPU API endpoints on Runpod - Get Bonus Credits • AdSkip the infrastructure headaches. Auto-scaling, pay-as-you-go, no-ops approach lets you focus on innovating your application.
- A single cell RNA-seq workflow, including highly variable gene analysis, cell type assignment and differential expression analysis.☆106Nov 22, 2022Updated 3 years ago
- Northern Arizona SNP Pipeline☆20Oct 29, 2024Updated 2 years ago
- ☆11Nov 18, 2021Updated 4 years ago
- Spliced alignment evaluation software☆13Oct 28, 2013Updated 13 years ago
- variant discovery and annotation using GATK and Ensembl☆17Jun 27, 2013Updated 13 years ago
- An introduction to python programming for Biologists and Bioinformaticians☆18Feb 10, 2026Updated 8 months ago
- MASC: Mixed-effects Association testing for Single Cells☆16Apr 16, 2021Updated 5 years ago