A data processing platform for ChIP-seq, RNA-seq, MNase-seq, DNase-seq, ATAC-seq and GRO-seq datasets. Please ignore information on cipher.readthedocs.io, it is currently out of date. Follow information in README.
☆19Dec 22, 2017Updated 8 years ago
Alternatives and similar repositories for cipher-workflow-platform
Users that are interested in cipher-workflow-platform are comparing it to the libraries listed below
Sorting:
- Analyze a set of genomes with the anvi'o pangenome pipeline☆16Oct 11, 2023Updated 2 years ago
- A fast, easy way to present complex bioinformatics pipelines to biologists☆11Sep 28, 2018Updated 7 years ago
- Mutational Signature Comprehensive Analysis Toolkit☆15Feb 19, 2026Updated last week
- Workshop content for http://dib-training.readthedocs.org/en/pub/2016-01-13-adv-beg-shell.html☆13Feb 23, 2018Updated 8 years ago
- An ATAC-seq pipeline wrapped in NextFlow that can be run by Jupyter☆14Jan 18, 2019Updated 7 years ago
- Parallel Recipes : parallel workflow execution made easy☆13Sep 1, 2015Updated 10 years ago
- This pipeline has moved! Please see:☆11Mar 12, 2018Updated 7 years ago
- Luslab nextflow modules☆14Apr 30, 2021Updated 4 years ago
- Core consonance utilities for scheduling, reporting on, and provisioning VMs for workflows☆14Jun 27, 2018Updated 7 years ago
- Implementation of the GA4GH Workflow Execution Service, a REST service for running workflows☆38Feb 5, 2026Updated 3 weeks ago
- Manuscript describing ChronQC is now available online in Bioinformatics☆18Jun 25, 2019Updated 6 years ago
- Generate and process BAM files from Illumina sequencing instrument files☆23Feb 25, 2016Updated 10 years ago
- Tutorials covering various topics in genomic data analysis.☆16Nov 29, 2018Updated 7 years ago
- H3ABioNet 16S rDNA diverstity analysis package☆19May 20, 2019Updated 6 years ago
- **DEFUNCT** dada2-based Nextflow pipeline for multiple amplicon data. See website for up-to-date version☆20Nov 1, 2019Updated 6 years ago
- DEPRECIATED! Please use nf-core/tools instead☆19Aug 8, 2018Updated 7 years ago
- A tool to benchmark mappers and different parameters within minutes☆44Jul 2, 2019Updated 6 years ago
- BACTpipe: An assembly and annotation pipeline for bacterial genomics☆20Dec 3, 2024Updated last year
- Maximum Likelihood Amplicon Pipeline☆22May 22, 2024Updated last year
- List of IARC bioinformatics pipelines and resources☆56Nov 24, 2025Updated 3 months ago
- A message queue for genomic surveillance☆19Oct 14, 2021Updated 4 years ago
- ☆21Jul 3, 2019Updated 6 years ago
- Load genomic BAM files using Apache Spark☆21Jun 17, 2018Updated 7 years ago
- De novo assembly of nanopore reads using nextflow☆20Aug 5, 2020Updated 5 years ago
- Plots of highest density regions (HDR) for ggplot2☆54Feb 7, 2024Updated 2 years ago
- RNAseq analysis pipeline☆27Feb 12, 2026Updated 2 weeks ago
- scover☆24Nov 3, 2023Updated 2 years ago
- A collection of modules and sub-workflows for Nextflow☆28Feb 13, 2026Updated 2 weeks ago
- ☆28Nov 23, 2020Updated 5 years ago
- Whole Exome/Whole Genome Sequencing alignment pipeline☆30Sep 18, 2024Updated last year
- ☆62Aug 4, 2020Updated 5 years ago
- Import a CWL workflow specification to Nextflow script (experimental)☆27Aug 9, 2018Updated 7 years ago
- R Package of methods and data for spatial epidemiology☆34Feb 22, 2023Updated 3 years ago
- A collection of tools to deal with Bisulfite-seq/NOMe-seq (SNP/Methylation calling: BisSNP; HMM segmentation: DMNTools; Visualization/Clu…☆32Nov 10, 2021Updated 4 years ago
- Super high performance interactive heatmap software☆31Nov 19, 2018Updated 7 years ago
- A middleware abstraction library that provides a simple programming interface to various compute and storage resources.☆37May 30, 2024Updated last year
- Genomic Association Tester☆35May 2, 2023Updated 2 years ago
- Integrate the cancer genomics portal, cBioPortal, using MultiAssayExperiment☆34Updated this week
- ENCODE Uniform processing pipeline for ChIP-seq☆124Mar 23, 2020Updated 5 years ago