Alternatives and similar repositories for chromVAR

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

• wheaton5 / souporcell
  Clustering scRNAseq by genotypes
  ☆189Updated 10 months ago
• timoast / sinto
  Tools for single-cell data processing
  ☆127Updated last year
• BaderLab / CellAnnotationTutorial
  Accompanying code for the tutorial: Annotating single cell transcriptomic maps using automated and manual methods
  ☆97Updated 2 years ago
• kharchenkolab / numbat
  Haplotype-aware CNV analysis from single-cell RNA-seq
  ☆190Updated 2 weeks ago
• snakemake-workflows / single-cell-rna-seq
  A single cell RNA-seq workflow, including highly variable gene analysis, cell type assignment and differential expression analysis.
  ☆103Updated 2 years ago
• aertslab / AUCell
  AUCell: score single cells with gene regulatory networks
  ☆169Updated last year
• AllonMKlein / scrublet
  Detect doublets in single-cell RNA-seq data
  ☆86Updated 6 years ago
• rpolicastro / scProportionTest
  ☆73Updated 2 years ago
• JiekaiLab / scTE
  ☆110Updated last year
• broadinstitute / Drop-seq
  Java tools for analyzing Drop-seq data
  ☆130Updated last week
• pachterlab / kallistobustools
  kallisto | bustools workflow for pre-processing single-cell RNA-seq data
  ☆118Updated 3 years ago
• satijalab / azimuth
  A Shiny web app for mapping datasets using Seurat v4
  ☆132Updated 11 months ago
• GreenleafLab / 10x-scATAC-2019
  Publication Page for Satpathy*, Granja* et al 2019
  ☆95Updated 5 years ago
• farrellja / URD
  URD - Reconstruction of Branching Developmental Trajectories
  ☆124Updated 4 years ago
• tallulandrews / scRNASeqPipeline
  ☆118Updated 7 years ago
• single-cell-genetics / cellsnp-lite
  Efficient genotyping bi-allelic SNPs on single cells
  ☆150Updated last year
• compbiomed / singleCellTK
  Interactively analyze single cell genomic data
  ☆183Updated last week
• SingleR-inc / SingleR
  Clone of the Bioconductor repository for the SingleR package.
  ☆195Updated 2 months ago
• basilkhuder / Seurat-to-RNA-Velocity
  A guide to using a Seurat object in conjunction with RNA Velocity
  ☆139Updated 3 years ago
• crazyhottommy / scclusteval
  Single Cell Cluster Evaluation
  ☆97Updated 4 years ago
• hemberg-lab / scmap
  A tool for unsupervised projection of single cell RNA-seq data
  ☆95Updated 4 years ago
• bioinfo-ibms-pumc / SCSA
  SCSA: cell type annotation for single-cell RNA-seq data
  ☆91Updated 2 years ago
• fl-yu / CUT-RUNTools-2.0
  CUT&RUN and CUT&Tag data processing and analysis
  ☆111Updated 7 months ago
• saezlab / dorothea
  R package to access DoRothEA's regulons
  ☆150Updated last year
• saezlab / progeny
  R package for Pathway RespOnsive GENe activity inference
  ☆108Updated 2 years ago
• cellgeni / STARsolo
  wrapper scripts for convenient STARsolo processing of 10X and other scRNA-seq
  ☆68Updated 3 months ago
• dviraran / xCell
  Cell types enrichment analysis
  ☆202Updated last year
• czbiohub-sf / tabula-muris
  Code and annotations for the Tabula Muris single-cell transcriptomic dataset.
  ☆193Updated 2 years ago
• immunogenomics / symphony
  Efficient and precise single-cell reference atlas mapping with Symphony
  ☆110Updated 2 years ago
• AntonioDeFalco / SCEVAN
  R package that automatically classifies the cells in the scRNA data by segregating non-malignant cells of tumor microenviroment from the …
  ☆112Updated last month