epigen / mixscape_seuratLinks
A Snakemake workflow and MrBiomics module for performing perturbation analyses of pooled (multimodal) CRISPR screens with sc/snRNA-seq read-out (scCRISPR-seq) powered by the R package Seurat's method Mixscape.
☆22Updated last month
Alternatives and similar repositories for mixscape_seurat
Users that are interested in mixscape_seurat are comparing it to the libraries listed below
Sorting:
- A Snakemake workflow and MrBiomics module for processing and visualizing (multimodal) sc/snRNA-seq data generated with 10X Genomics Kits …☆23Updated last month
- A Snakemake workflow and MrBiomics module to split, filter, normalize, integrate and select highly variable features of count matrices re…☆19Updated last month
- A Snakemake workflow and MrBiomics module for performing differential expression analyses (DEA) on (multimodal) sc/snRNA-seq data powered…☆23Updated 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, …☆25Updated last week
- single-cell clustering based on alternative splicing landscapes☆21Updated last year
- pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.☆70Updated 2 weeks ago
- ☆81Updated last week
- Removing empty droplets in multiome datasets☆17Updated last year
- ☆20Updated 11 months ago
- ☆35Updated 11 months ago
- An analysis toolkit for single-cell methylation sequencing data☆21Updated this week
- SAMap: Mapping single-cell RNA sequencing datasets from evolutionarily distant organisms.☆77Updated last year
- Functional Inference of Gene Regulation☆46Updated last year
- ☆55Updated last month
- Scripts to reproduce the analysis of the MAESTER paper (https://www.nature.com/articles/s41587-022-01210-8).☆12Updated last year
- Direct estimation of mean and covariance from single cell RNA seq experiments☆114Updated 3 months ago
- This repository contains our CellTag workflow, as deployed in our 2018 Biddy et al., Nature paper.☆32Updated last year
- Scripts used to perform the analyses to study the Biology of Myeloid Cells in Glioma Microenvironments☆18Updated 2 months ago
- Scripts for the analysis of TT-seq and DRB/TT-seq data.☆10Updated 5 years ago
- interactive visualization of single-cell transcriptomes☆11Updated last year
- A method to rapidly assess cell type identity using both functional and random gene sets☆39Updated 7 months ago
- Analysis of cell-cell communication at single-cell resolution☆103Updated 11 months ago
- A tool for semi-automatic cell type harmonization and integration☆109Updated 4 months ago
- ☆32Updated 6 months ago
- A Snakemake workflow and MrBiomics module for performing and visualizing differential (expression) analyses (DEA) on NGS data powered by …☆29Updated 3 weeks ago
- ☆13Updated 3 years ago
- Code to reproduce the analysis of "Decoding gene regulation in the mouse embryo using single-cell multi-omics""☆40Updated 2 years ago
- SNV calling from single cell sequencing☆104Updated 9 months ago
- A count based method for detecting doublets from single nucleus ATAC-seq (snATAC-seq) data.☆31Updated 2 years ago
- ☆32Updated last year