Epigenomics Program pipeline to analyze SHARE-seq data.
☆23Mar 30, 2025Updated 11 months ago
Alternatives and similar repositories for epi-SHARE-seq-pipeline
Users that are interested in epi-SHARE-seq-pipeline are comparing it to the libraries listed below
Sorting:
- ☆11Oct 4, 2021Updated 4 years ago
- Single cell Nanopore sequencing data for Genotype and Phenotype☆57May 15, 2025Updated 9 months ago
- Data processing and analysis workflow for GAGE-seq, a coassay of single-cell HiC and single-cell RNA-seq☆15Oct 6, 2025Updated 5 months ago
- ☆28Nov 2, 2023Updated 2 years ago
- ☆19Jan 24, 2025Updated last year
- SnapHiC: Single Nucleus Analysis Pipeline for Hi-C Data☆42Jul 6, 2023Updated 2 years ago
- 𝒫robabilistic modeling of RNA velocity ⬱☆49Updated this week
- single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, genome subcompartment☆21Apr 8, 2024Updated last year
- Toolkit for metacell analysis☆23Aug 8, 2024Updated last year
- Repo for generating custom blacklist for reads originating from mitochondrial DNA to nuclear genome☆22Jun 10, 2022Updated 3 years ago
- ☆22Jul 30, 2025Updated 7 months ago
- This is a virtual environment which contains databases, software, workflows, and workshops for Precision Health Data Analysis.☆23Mar 31, 2023Updated 2 years ago
- Single-cell epigenomics analysis tools☆310Updated this week
- ☆59Feb 9, 2026Updated last month
- One-liner for mapping orthologous genes in both R and python using ENSEMBL BioMART☆24Nov 11, 2021Updated 4 years ago
- Nextflow pipeline to re-process all public single-cell RNA-seq data☆32Jul 9, 2025Updated 8 months ago
- Learning notes for DBiT-Notes☆11Nov 28, 2024Updated last year
- Pipeline for Universal Mapping of ATAC-seq☆26Sep 23, 2025Updated 5 months ago
- Chromatin interaction aware gene regulatory modeling with graph attention networks☆28Feb 21, 2023Updated 3 years ago
- ☆27Oct 23, 2024Updated last year
- Tools for correcting single cell barcodes for various scATAC-seq techniques and creating fragment files and spltting BAM files per cluste…☆29Feb 16, 2026Updated 3 weeks ago
- Context specific and dynamic gene regulatory network reconstruction and analysis☆128Updated this week
- Create WDL documentation using Markdown.☆28Nov 25, 2025Updated 3 months ago
- multiway chromatin interaction, 3D genome, single-nucleus, hypergraph representation learning☆31Jul 20, 2022Updated 3 years ago
- Multi-omic velocity inference☆116Oct 23, 2024Updated last year
- machine-readable file format for genomic library sequence and structure☆128Mar 2, 2026Updated last week
- ☆13Updated this week
- A python package for chromVAR☆33May 1, 2023Updated 2 years ago
- Gene regulatory network inference for RNA velocity and pseudotime data☆29Nov 6, 2025Updated 4 months ago
- Sparse Lazy Array Format (SLAF) for Single-Cell Genomics☆54Updated this week
- Code used to analyze single cell RNA and ATAC sequencing in developing human brain☆35Jan 4, 2022Updated 4 years ago
- nuclear compartments, subcompartments, nuclear organization, Hi-C, autoencoder☆29Jul 5, 2024Updated last year
- ☆71Nov 21, 2025Updated 3 months ago
- The Isoforms from Single-Cell; Long-read Expression Suite☆38Jan 14, 2025Updated last year
- A count based method for detecting doublets from single nucleus ATAC-seq (snATAC-seq) data.☆32Jan 3, 2023Updated 3 years ago
- Pipeline for the identification of (coding) gene structures in draft genomes.☆36May 9, 2024Updated last year
- Fast alignment and preprocessing of chromatin profiles☆215Jan 17, 2026Updated last month
- T1K is a versatile methods to genotype highly polymorphic genes (e.g. KIR, HLA) with bulk or single-cell RNA-seq, WGS or WES data.☆98Dec 21, 2025Updated 2 months ago
- Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.☆86Mar 20, 2025Updated 11 months ago