Ultimate ATAC-seq Data Processing, Quantification and Annotation Snakemake Workflow and MrBiomics Module.
☆96Nov 25, 2025Updated 3 months ago
Alternatives and similar repositories for atacseq_pipeline
Users that are interested in atacseq_pipeline are comparing it to the libraries listed below
Sorting:
- A Snakemake workflow and MrBiomics module to split, filter, normalize, integrate and select highly variable features of count matrices re…☆51Jan 9, 2026Updated last month
- A Snakemake workflow and MrBiomics module for easy visualization of genome browser tracks of aligned BAM files (e.g., RNA-seq, ATAC-seq, …☆54Aug 5, 2025Updated 7 months ago
- Workflow to Fetch Public Sequencing Data and Metadata Using iSeq and MrBiomics Module.☆42Jun 23, 2025Updated 8 months ago
- CeMM's Snakemake SLURM cluster profile☆47Oct 8, 2025Updated 4 months ago
- A Snakemake workflow and MrBiomics module for performing and visualizing differential analyses of NGS data powered by the R package limma…☆59Nov 25, 2025Updated 3 months ago
- A Snakemake workflow and MrBiomics module for performing genomic region set and gene set enrichment analyses using LOLA, GREAT, GSEApy, p…☆72Sep 24, 2025Updated 5 months ago
- A Snakemake workflow and MrBiomics module for performing differential expression analyses (DEA) on (multimodal) sc/snRNA-seq data powered…☆52Sep 5, 2025Updated 6 months ago
- A Snakemake workflow and MrBiomics module for processing and visualizing (multimodal) sc/snRNA-seq data generated with 10X Genomics Kits …☆55Jan 29, 2026Updated last month
- RNA-seq Data Processing, Quantification and Annotation Snakemake Workflow and MrBiomics Module.☆41Aug 5, 2025Updated 7 months ago
- A toolkit for NGS analysis with Python☆14Jan 18, 2023Updated 3 years ago
- A python package for calculating local cell specific networks☆17Nov 17, 2023Updated 2 years ago
- Accessible and interoperable whole slide image analysis☆185Updated this week
- Assign genotypes to Salmonella Paratyphi A isolates using their whole-genome data.☆10Mar 6, 2025Updated last year
- Companion notebooks for "Dog and human inflammatory bowel disease rely on overlapping yet distinct dysbiosis networks"☆11Jul 13, 2018Updated 7 years ago
- A set of processes/pipelines for bioinformatics☆14Feb 24, 2026Updated last week
- Integrative analysis for scRNA-seq and scTCR-/scBCR-seq data☆20Updated this week
- Functions to analyze copy number aberrations in single-cell data☆13Feb 3, 2025Updated last year
- Variant Graph Craft (VGC) is an interactive genomic variant visualization program.☆16May 17, 2024Updated last year
- ☆16Jun 5, 2022Updated 3 years ago
- A end-to-end scRNA-seq analysis pipeline for cross-group comparison☆19May 18, 2025Updated 9 months ago
- Assessing the reproducibility of proccessed ChIP-seq peaks☆13Mar 7, 2021Updated 4 years ago
- An awesome list of learning resources for bioinformatics, genomics and computational biology☆22Aug 29, 2025Updated 6 months ago
- Smooth-quantile Normalization Adaptation for Inference of co-expression Links☆16May 16, 2023Updated 2 years ago
- ☆17Dec 15, 2017Updated 8 years ago
- Layered enrichment analysis tool enables facile enrichment using various statistics at once.☆18Feb 12, 2026Updated 3 weeks ago
- Toolkit for metacell analysis☆23Aug 8, 2024Updated last year
- ILIAD: A suite of automated Snakemake workflows for processing genomic data for downstream applications☆28Dec 12, 2023Updated 2 years ago
- Overview of the scripts used to analyse the brainimmuneatlas data☆19Oct 20, 2020Updated 5 years ago
- Course Materials for Genomics Data Mining☆22Sep 18, 2025Updated 5 months ago
- MeRIP-seq analysis pipeline arranged multiple alignment tools, peakCalling tools, Merge Peaks' methods and methylation analysis methods.☆22Jun 18, 2021Updated 4 years ago
- Website☆16Aug 30, 2025Updated 6 months ago
- ☆19Feb 23, 2022Updated 4 years ago
- ☆22Mar 6, 2023Updated 3 years ago
- ShinyCell2 is a lightweight R package for building interactive, shareable apps to explore single-cell multi-omics, scATAC-seq and spatial…☆52Jun 1, 2025Updated 9 months ago
- snakemake pipeline for Hi-C post-processing☆22Jun 27, 2024Updated last year
- A short tutorial on getting started with Snakemake for workflow management☆57Apr 1, 2019Updated 6 years ago
- Software Pipeline for Integrative Genetic Association Analysis: Probabilistic Assessment of Enrichment and Colocalization☆27Oct 29, 2019Updated 6 years ago
- Personal diploid genome creation and coordinate conversion☆30Apr 1, 2025Updated 11 months ago
- A database of useful gene signatures for single-cell analysis☆28May 19, 2025Updated 9 months ago