CGAT-ruffus is a lightweight python module for running computational pipelines
☆175Jul 12, 2021Updated 4 years ago
Alternatives and similar repositories for ruffus
Users that are interested in ruffus are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Infrastructure code to support DNA pipeline☆38May 5, 2015Updated 10 years ago
- Lightweight workflows in bioinformatics:☆24Nov 5, 2014Updated 11 years ago
- cgat-apps repository☆35Apr 9, 2025Updated 11 months ago
- Core functionality of the CGAT code☆34Mar 8, 2026Updated 3 weeks ago
- FAstqc DAta PArser - A minimal parser to parse FastQC output data.☆16Apr 9, 2016Updated 9 years ago
- End-to-end encrypted cloud storage - Proton Drive • AdSpecial offer: 40% Off Yearly / 80% Off First Month. Protect your most important files, photos, and documents from prying eyes.
- Simple tokenised template system for SGE☆10Mar 1, 2023Updated 3 years ago
- The papy package provides an implementation of the flow-based programming paradigm in Python☆35Dec 31, 2024Updated last year
- A Python library for reading and writing PacBio® data files☆41Mar 6, 2026Updated 3 weeks ago
- Create multi-page HTML reports in R☆24Jun 25, 2017Updated 8 years ago
- SAGA-based Pilot-Job Implementation for Compute and Data☆19Mar 14, 2026Updated 2 weeks ago
- Fitting latent factor mixed models☆13Jun 12, 2020Updated 5 years ago
- Peakzilla is a self-learning algorithm to identify transcription factor binding sites from ChIP-seq data. I would be very happy if you tr…☆21Aug 18, 2025Updated 7 months ago
- R package to quickly obtain count vectors from indexed bam files☆15Jun 13, 2025Updated 9 months ago
- Modular job submitter for arbitrary pipelines or commands.☆26Updated this week
- 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.
- 10x Genomics Reads Simulator☆46Dec 26, 2023Updated 2 years ago
- A pipeline to assess the quantification of transcripts.☆19Jun 6, 2022Updated 3 years ago
- qtools has helper functions to submit jobs to compute clusters (PBS on TSCC, SGE on oolite) from within Python☆21Sep 20, 2023Updated 2 years ago
- Lab notebook for people who like the command line.☆11Mar 6, 2026Updated 3 weeks ago
- Reference genome resource manager☆74Mar 6, 2026Updated 3 weeks ago
- ☆14Oct 14, 2020Updated 5 years ago
- Browser based application for viewing bam alignments☆56Dec 16, 2016Updated 9 years ago
- Dockerised Next Generation Sequencing Pipeline (QC, Align, Calling, Annotation)☆86Jul 10, 2017Updated 8 years ago
- The open source version of the Melbourne Genomics Health Alliance Exome Sequencing Pipeline☆33Jan 20, 2018Updated 8 years ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click and start building anything your business needs.
- R package for extracting mutation signatures from a list of somatic mutations☆37Aug 9, 2019Updated 6 years ago
- Bpipe - a tool for running and managing bioinformatics pipelines☆239Mar 6, 2026Updated 3 weeks ago
- blast, shmlast☆21Oct 5, 2020Updated 5 years ago
- Rapid discovery of reciprocal best blast pairs.☆10Nov 9, 2024Updated last year
- A WGS de novo assembler based on the FMD-index for large genomes☆74Dec 6, 2013Updated 12 years ago
- Streaming sequence classification with web services ✓📌☆19Dec 8, 2022Updated 3 years ago
- Repository for the CWL standards. Use https://cwl.discourse.group/ for support 😊☆1,482Jan 8, 2026Updated 2 months ago
- Additional tools for analyzing Oxford Nanopore minION data☆17Jul 24, 2015Updated 10 years ago
- Distributed and cloud computing framework for vg☆23Mar 18, 2026Updated last week
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click and start building anything your business needs.
- R package - Analysis of Single Cell Expression, Normalisation and Differential expression (ascend)☆22Aug 28, 2019Updated 6 years ago
- Code for Shipman et al. 2017☆13Jul 12, 2017Updated 8 years ago
- A project to develop the R Shiny applications.☆12May 13, 2019Updated 6 years ago
- An ASCII-art based data flow management system☆18Dec 11, 2017Updated 8 years ago
- Utils around luigi.☆66Aug 22, 2025Updated 7 months ago
- ☆12Sep 22, 2025Updated 6 months ago
- ☆12Feb 12, 2018Updated 8 years ago