Alternatives and similar repositories for xCell:

Users that are interested in xCell are comparing it to the libraries listed below

• constantAmateur / SoupX
  R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data
  ☆264Updated 2 years ago
• digitalcytometry / ecotyper
  EcoTyper is a machine learning framework for large-scale identification of cell states and cellular ecosystems from gene expression data.
  ☆193Updated 10 months ago
• basilkhuder / Seurat-to-RNA-Velocity
  A guide to using a Seurat object in conjunction with RNA Velocity
  ☆136Updated 3 years ago
• cortes-ciriano-lab / SComatic
  A tool for detecting somatic variants in single cell data
  ☆188Updated 5 months ago
• czbiohub-sf / tabula-muris
  Code and annotations for the Tabula Muris single-cell transcriptomic dataset.
  ☆190Updated last year
• hbctraining / Investigating-chromatin-biology-ChIPseq
  ☆85Updated last week
• 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 last year
• navinlabcode / copykat
  ☆221Updated 7 months ago
• crazyhottommy / scATACseq-analysis-notes
  my notes for scATACseq analysis
  ☆120Updated 9 months ago
• GreenleafLab / chromVAR
  chromatin Variability Across Regions (of the genome!)
  ☆165Updated 7 months ago
• SingleR-inc / SingleR
  Clone of the Bioconductor repository for the SingleR package.
  ☆182Updated last month
• ZJUFanLab / scCATCH
  Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data
  ☆222Updated last year
• broadinstitute / ssGSEA2.0
  Single sample Gene Set Enrichment analysis (ssGSEA) and PTM Enrichment Analysis (PTM-SEA)
  ☆263Updated 4 months ago
• JiekaiLab / scDIOR
  scDIOR: Single cell data IO softwaRe
  ☆139Updated 3 years ago
• IanevskiAleksandr / sc-type
  ☆253Updated 3 months ago
• liulab-dfci / MAESTRO
  Single-cell Transcriptome and Regulome Analysis Pipeline
  ☆279Updated last year
• 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…
  ☆138Updated this week
• compbiomed / singleCellTK
  Interactively analyze single cell genomic data
  ☆181Updated this week
• dviraran / SingleR
  SingleR: Single-cell RNA-seq cell types Recognition (legacy version)
  ☆282Updated 4 years ago
• samuel-marsh / scCustomize
  R package with collection of functions created and/or curated to aid in the visualization and analysis of single-cell data using R.
  ☆242Updated last week
• sunduanchen / Scissor
  Scissor package
  ☆205Updated 9 months ago
• aertslab / SCENICprotocol
  A scalable SCENIC workflow for single-cell gene regulatory network analysis
  ☆149Updated 2 years ago
• zhangyuqing / ComBat-seq
  Batch effect adjustment based on negative binomial regression for RNA sequencing count data
  ☆171Updated 4 years ago
• cellgeni / scRNA.seq.course
  Analysis of single cell RNA-seq data course
  ☆129Updated 2 years ago
• theislab / kBET
  An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.
  ☆157Updated last year
• wheaton5 / souporcell
  Clustering scRNAseq by genotypes
  ☆175Updated 3 months ago
• tallulandrews / scRNASeqPipeline
  ☆118Updated 6 years ago
• BorchLab / escape
  Easy single cell analysis platform for enrichment
  ☆159Updated 2 weeks ago
• neurorestore / Libra
  ☆162Updated 5 months ago
• plger / scDblFinder
  Methods for detecting doublets in single-cell sequencing data
  ☆180Updated last week