zhangyuqing / ComBat-seq
Batch effect adjustment based on negative binomial regression for RNA sequencing count data
☆168Updated 4 years ago
Alternatives and similar repositories for ComBat-seq:
Users that are interested in ComBat-seq are comparing it to the libraries listed below
- Cell types enrichment analysis☆191Updated 7 months ago
- my notes for scATACseq analysis☆120Updated 8 months ago
- A guide to using a Seurat object in conjunction with RNA Velocity☆136Updated 3 years ago
- Code and annotations for the Tabula Muris single-cell transcriptomic dataset.☆190Updated last year
- ☆85Updated 6 months ago
- Accompanying code for the tutorial: Annotating single cell transcriptomic maps using automated and manual methods☆89Updated last year
- This repository contains R code, with which you can create 3D UMAP and tSNE plots of Seurat analyzed scRNAseq data☆121Updated last year
- Single sample Gene Set Enrichment analysis (ssGSEA) and PTM Enrichment Analysis (PTM-SEA)☆258Updated 3 months ago
- A tool for detecting somatic variants in single cell data☆182Updated 4 months ago
- Single-cell Transcriptome and Regulome Analysis Pipeline☆279Updated last year
- R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data☆263Updated 2 years ago
- ☆118Updated 6 years ago
- scDIOR: Single cell data IO softwaRe☆139Updated 2 years ago
- ☆91Updated 3 years ago
- Single cell RNA sequencing analysis course☆200Updated 3 months ago
- A complete guide for analyzing bulk RNA-seq data. Go from raw FASTQ files to mapping reads using STAR and differential gene expression an…☆73Updated 4 years ago
- Updated implementation of the GSEA-P R application for modern R distributions☆94Updated 3 years ago
- Transcription factor Occupancy prediction By Investigation of ATAC-seq Signal☆205Updated last month
- Application for making ENCODE Blacklists☆280Updated 3 years ago
- scplotter is an R package that is built upon plotthis. It provides a set of functions to visualize single-cell sequencing data in an easy…☆135Updated this week
- EcoTyper is a machine learning framework for large-scale identification of cell states and cellular ecosystems from gene expression data.☆192Updated 9 months ago
- Direct estimation of mean and covariance from single cell RNA seq experiments☆95Updated this week
- ☆57Updated 8 months ago
- A scalable SCENIC workflow for single-cell gene regulatory network analysis☆149Updated 2 years ago
- Bench-marking classification tools for scRNA-seq data☆184Updated 2 years ago
- ☆151Updated 4 months ago
- A continually expanding collection of cancer genomics notes and data☆102Updated 2 months ago
- Benchmarking computational single cell ATAC-seq methods☆179Updated 4 years ago
- Clone of the Bioconductor repository for the SingleR package.☆182Updated last week
- ☆249Updated 2 months ago