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
  ☆194Updated 11 months ago
• JiekaiLab / scDIOR
  scDIOR: Single cell data IO softwaRe
  ☆139Updated 3 years ago
• crazyhottommy / scATACseq-analysis-notes
  my notes for scATACseq analysis
  ☆124Updated last year
• czbiohub-sf / tabula-muris
  Code and annotations for the Tabula Muris single-cell transcriptomic dataset.
  ☆191Updated 2 years ago
• liulab-dfci / MAESTRO
  Single-cell Transcriptome and Regulome Analysis Pipeline
  ☆279Updated 2 years ago
• GSEA-MSigDB / GSEA_R
  Updated implementation of the GSEA-P R application for modern R distributions
  ☆96Updated 3 years ago
• hbctraining / Investigating-chromatin-biology-ChIPseq
  ☆89Updated this week
• BaderLab / CellAnnotationTutorial
  Accompanying code for the tutorial: Annotating single cell transcriptomic maps using automated and manual methods
  ☆92Updated 2 years ago
• SingleR-inc / SingleR
  Clone of the Bioconductor repository for the SingleR package.
  ☆186Updated 2 months ago
• constantAmateur / SoupX
  R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data
  ☆271Updated 2 years ago
• basilkhuder / Seurat-to-RNA-Velocity
  A guide to using a Seurat object in conjunction with RNA Velocity
  ☆138Updated 3 years ago
• cortes-ciriano-lab / SComatic
  A tool for detecting somatic variants in single cell data
  ☆199Updated 7 months ago
• bnprks / BPCells
  Scaling Single Cell Analysis to Millions of Cells
  ☆201Updated this week
• satijalab / azimuth
  A Shiny web app for mapping datasets using Seurat v4
  ☆122Updated 5 months ago
• GreenleafLab / chromVAR
  chromatin Variability Across Regions (of the genome!)
  ☆172Updated 9 months ago
• theislab / kBET
  An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.
  ☆162Updated last year
• broadinstitute / ssGSEA2.0
  Single sample Gene Set Enrichment analysis (ssGSEA) and PTM Enrichment Analysis (PTM-SEA)
  ☆283Updated 6 months ago
• tallulandrews / scRNASeqPipeline
  ☆118Updated 6 years ago
• pwwang / scplotter
  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…
  ☆145Updated 2 weeks ago
• loosolab / TOBIAS
  Transcription factor Occupancy prediction By Investigation of ATAC-seq Signal
  ☆210Updated 3 months ago
• PoisonAlien / TCGAmutations
  R data package for pre-compiled somatic mutations from TCGA cohorts and CCLE
  ☆93Updated 6 months ago
• compbiomed / singleCellTK
  Interactively analyze single cell genomic data
  ☆182Updated this week
• neurorestore / Libra
  ☆165Updated 7 months 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…
  ☆79Updated 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.
  ☆197Updated last year
• cellgeni / scRNA.seq.course
  Analysis of single cell RNA-seq data course
  ☆135Updated 2 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
• OSCA-source / OSCA
  The package wrapping the book, for deployment via the Bioconductor build system.
  ☆84Updated 5 months ago
• tavareshugo / tutorial_DESeq2_contrasts
  ☆59Updated 11 months ago
• asncd / MIMOSCA
  A repository for the design and analysis of pooled single cell RNA-seq perturbation experiments.
  ☆86Updated 5 years ago