Alternatives and similar repositories for ComBat-seq

Users that are interested in ComBat-seq are comparing it to the libraries listed below

• dviraran / xCell
  Cell types enrichment analysis
  ☆198Updated last year
• BaderLab / CellAnnotationTutorial
  Accompanying code for the tutorial: Annotating single cell transcriptomic maps using automated and manual methods
  ☆93Updated 2 years ago
• huayc09 / SeuratExtend
  ☆142Updated last week
• cortes-ciriano-lab / SComatic
  A tool for detecting somatic variants in single cell data
  ☆206Updated 9 months ago
• basilkhuder / Seurat-to-RNA-Velocity
  A guide to using a Seurat object in conjunction with RNA Velocity
  ☆139Updated 3 years ago
• constantAmateur / SoupX
  R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data
  ☆279Updated 2 years ago
• crazyhottommy / scATACseq-analysis-notes
  my notes for scATACseq analysis
  ☆128Updated last year
• czbiohub-sf / tabula-muris
  Code and annotations for the Tabula Muris single-cell transcriptomic dataset.
  ☆192Updated 2 years ago
• GSEA-MSigDB / GSEA_R
  Updated implementation of the GSEA-P R application for modern R distributions
  ☆96Updated 3 years ago
• Dragonmasterx87 / Interactive-3D-Plotting-in-Seurat-3.0.0
  This repository contains R code, with which you can create 3D UMAP and tSNE plots of Seurat analyzed scRNAseq data
  ☆121Updated 2 years ago
• hbctraining / Intro-to-bulk-RNAseq
  Introduction to bulk RNA-seq
  ☆108Updated last month
• tallulandrews / scRNASeqPipeline
  ☆118Updated 6 years ago
• IanevskiAleksandr / sc-type
  ☆268Updated 7 months ago
• SingleR-inc / SingleR
  Clone of the Bioconductor repository for the SingleR package.
  ☆191Updated 2 weeks ago
• theislab / kBET
  An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.
  ☆162Updated last year
• JiekaiLab / scDIOR
  scDIOR: Single cell data IO softwaRe
  ☆141Updated 3 years ago
• bnprks / BPCells
  Scaling Single Cell Analysis to Millions of Cells
  ☆217Updated last week
• saezlab / dorothea
  R package to access DoRothEA's regulons
  ☆148Updated last year
• yelabucsf / scrna-parameter-estimation
  Direct estimation of mean and covariance from single cell RNA seq experiments
  ☆110Updated last month
• PoisonAlien / TCGAmutations
  R data package for pre-compiled somatic mutations from TCGA cohorts and CCLE
  ☆94Updated 8 months ago
• neurorestore / Libra
  ☆172Updated last month
• pinellolab / scATAC-benchmarking
  Benchmarking computational single cell ATAC-seq methods
  ☆184Updated 4 years ago
• CebolaLab / ATAC-seq
  Analysis pipeline for ATAC-seq data
  ☆61Updated last year
• liulab-dfci / MAESTRO
  Single-cell Transcriptome and Regulome Analysis Pipeline
  ☆285Updated 2 years ago
• erilu / bulk-rnaseq-analysis
  A complete guide for analyzing bulk RNA-seq data. Go from raw FASTQ files to mapping reads using STAR and differential gene expression an…
  ☆89Updated 4 years ago
• digitalcytometry / ecotyper
  EcoTyper is a machine learning framework for large-scale identification of cell states and cellular ecosystems from gene expression data.
  ☆203Updated last year
• ZJUFanLab / scCATCH
  Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data
  ☆227Updated 2 years ago
• changwn / scFEA
  single cell Flux Estimation Analysis (scFEA) Try the below web server!
  ☆124Updated last year
• GreenleafLab / chromVAR
  chromatin Variability Across Regions (of the genome!)
  ☆178Updated 11 months ago
• hbctraining / Investigating-chromatin-biology-ChIPseq
  ☆93Updated last month