mdozmorov / scATAC-seq_notes
scATAC-seq data analysis tools and papers
☆91Updated 11 months ago
Related projects: ⓘ
- scDIOR: Single cell data IO softwaRe☆130Updated 2 years ago
- A tool for detecting somatic variants in single cell data☆152Updated this week
- A guide to using a Seurat object in conjunction with RNA Velocity☆129Updated 2 years ago
- SCENIC+ is a python package to build gene regulatory networks (GRNs) using combined or separate single-cell gene expression (scRNA-seq) a…☆176Updated 2 weeks ago
- A scalable SCENIC workflow for single-cell gene regulatory network analysis☆138Updated last year
- MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell trans…☆112Updated 2 weeks ago
- ☆144Updated 3 weeks ago
- Pipeline for exploring metebolic heterogeneity at single-cell resolution☆71Updated 4 years ago
- Benchmarking computational single cell ATAC-seq methods☆176Updated 3 years ago
- Data processing and analysis related code associated with the study "A single-cell and spatially resolved atlas of human breast cancers".☆104Updated 11 months ago
- Accompanying code for the tutorial: Annotating single cell transcriptomic maps using automated and manual methods☆86Updated last year
- SEACells algorithm for Inference of transcriptional and epigenomic cellular states from single-cell genomics data☆145Updated 2 months ago
- EcoTyper is a machine learning framework for large-scale identification of cell states and cellular ecosystems from gene expression data.☆177Updated 5 months ago
- ☆97Updated 4 months ago
- my notes for scATACseq analysis☆114Updated 4 months ago
- Scissor package☆176Updated 4 months ago
- Single-nuclei RNA-seq and ATAC-seq in Alzheimer's disease☆81Updated 3 years ago
- Significance analysis for clustering single-cell RNA-sequencing data☆90Updated last week
- wrapper scripts for convenient STARsolo processing of 10X and other scRNA-seq☆42Updated 2 months ago
- An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.☆153Updated 7 months ago
- R package with collection of functions created and/or curated to aid in the visualization and analysis of single-cell data using R.☆201Updated this week
- This repository contains R code, with which you can create 3D UMAP and tSNE plots of Seurat analyzed scRNAseq data☆116Updated last year
- ☆56Updated last year
- CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data☆110Updated 4 months ago
- A Fully Bayesian Inference of Tumor Microenvironment composition and gene expression☆146Updated 3 months ago
- ☆76Updated 2 months ago
- Clustering scRNAseq by genotypes☆160Updated 3 weeks ago
- dandelion - A single cell BCR/TCR V(D)J-seq analysis package for 10X Chromium 5' data☆103Updated this week
- Conversion between scRNA-seq objects☆146Updated 2 months ago
- The integration of single cell rank-based gene set enrichment analysis☆107Updated last month