epigen / dea_limmaLinks
A Snakemake workflow and MrBiomics module for performing and visualizing differential (expression) analyses (DEA) on NGS data powered by the R package limma.
☆28Updated last week
Alternatives and similar repositories for dea_limma
Users that are interested in dea_limma are comparing it to the libraries listed below
Sorting:
- A Snakemake workflow and MrBiomics module for performing perturbation analyses of pooled (multimodal) CRISPR screens with sc/snRNA-seq re…☆22Updated 3 weeks ago
- A Snakemake workflow and MrBiomics module to split, filter, normalize, integrate and select highly variable features of count matrices re…☆19Updated last week
- A Snakemake workflow and MrBiomics module for processing and visualizing (multimodal) sc/snRNA-seq data generated with 10X Genomics Kits …☆23Updated 3 weeks ago
- A Snakemake workflow and MrBiomics module for performing differential expression analyses (DEA) on (multimodal) sc/snRNA-seq data powered…☆23Updated 3 weeks ago
- Port of symphony algorithm of single-cell reference atlas mapping to Python☆29Updated 7 months ago
- ☆35Updated 10 months ago
- A method for analyzing scATAC-seq experiments.☆32Updated 3 weeks ago
- Co-accessibility network from single-cell ATAC-seq data. Python code with AnnData, based on Cicero algorithm.☆22Updated 3 weeks ago
- pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.☆69Updated last week
- Multi-resolution Variational Inference☆22Updated 3 weeks ago
- Functional Inference of Gene Regulation☆45Updated last year
- pseudobulking on an AnnData object☆32Updated 4 months ago
- Direct estimation of mean and covariance from single cell RNA seq experiments☆111Updated 2 months ago
- ☆32Updated 5 months ago
- ☆54Updated 3 weeks ago
- cell type specific, trait-associated gene regulation☆27Updated 3 months ago
- Scalable sequence-informed embedding of single-cell ATAC-seq data with CellSpace☆41Updated 6 months ago
- A count based method for detecting doublets from single nucleus ATAC-seq (snATAC-seq) data.☆31Updated 2 years ago
- Single cell omics biology annotations☆51Updated 2 months ago
- A Snakemake workflow and MrBiomics module for performing genomic region set and gene set enrichment analyses using LOLA, GREAT, GSEApy, p…☆40Updated 2 weeks ago
- CREsted is a Python package for training sequence-based deep learning models on scATAC-seq data, for capturing enhancer code and for desi…☆42Updated last month
- Single-Cell ENhancer Target gene mapping using multimodal data with ATAC + RNA☆75Updated 2 months ago
- ☆23Updated 10 months ago
- Collection of Tumor-Infiltrating Lymphocyte Single-Cell Experiments with TCR☆89Updated last year
- ☆27Updated 4 months ago
- A python package for chromVAR☆28Updated 2 years ago
- ☆79Updated last week
- BLADE: Bayesian Log-normAl DEconvolution for enhanced in silico microdissection of bulk gene expression data☆28Updated last year
- Removing empty droplets in multiome datasets☆17Updated last year
- Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.☆78Updated 3 months ago