Alternatives and similar repositories for souporcell:

Users that are interested in souporcell 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
  ☆268Updated 2 years ago
• cortes-ciriano-lab / SComatic
  A tool for detecting somatic variants in single cell data
  ☆198Updated 7 months ago
• basilkhuder / Seurat-to-RNA-Velocity
  A guide to using a Seurat object in conjunction with RNA Velocity
  ☆138Updated 3 years ago
• ZJUFanLab / scCATCH
  Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data
  ☆226Updated last year
• 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
• aertslab / scenicplus
  SCENIC+ is a python package to build gene regulatory networks (GRNs) using combined or separate single-cell gene expression (scRNA-seq) a…
  ☆216Updated 2 months ago
• navinlabcode / copykat
  ☆230Updated 9 months ago
• JiekaiLab / scDIOR
  scDIOR: Single cell data IO softwaRe
  ☆140Updated 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
• neurorestore / Libra
  ☆165Updated 7 months 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
• theislab / zellkonverter
  Conversion between scRNA-seq objects
  ☆171Updated last week
• cellgeni / schard
  reticulate-free single cell format conversion
  ☆140Updated 4 months ago
• kharchenkolab / numbat
  Haplotype-aware CNV analysis from single-cell RNA-seq
  ☆181Updated last month
• JiekaiLab / scTE
  ☆105Updated 11 months ago
• saeyslab / multinichenetr
  MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell trans…
  ☆143Updated 3 months ago
• bnprks / BPCells
  Scaling Single Cell Analysis to Millions of Cells
  ☆194Updated this week
• SingleR-inc / SingleR
  Clone of the Bioconductor repository for the SingleR package.
  ☆185Updated 2 months ago
• timoast / sinto
  Tools for single-cell data processing
  ☆123Updated 10 months ago
• plger / scDblFinder
  Methods for detecting doublets in single-cell sequencing data
  ☆187Updated last month
• single-cell-genetics / cellsnp-lite
  Efficient genotyping bi-allelic SNPs on single cells
  ☆143Updated 10 months ago
• saezlab / liana
  LIANA: a LIgand-receptor ANalysis frAmework
  ☆199Updated 8 months ago
• dviraran / xCell
  Cell types enrichment analysis
  ☆194Updated 10 months 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.
  ☆249Updated this week
• broadinstitute / CellBender
  CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.
  ☆320Updated 9 months ago
• aertslab / SCENICprotocol
  A scalable SCENIC workflow for single-cell gene regulatory network analysis
  ☆155Updated 2 years ago
• igrabski / sc-SHC
  Significance analysis for clustering single-cell RNA-sequencing data
  ☆115Updated 7 months ago
• loosolab / TOBIAS
  Transcription factor Occupancy prediction By Investigation of ATAC-seq Signal
  ☆210Updated 2 months ago
• swolock / scrublet
  Detect doublets in single-cell RNA-seq data
  ☆146Updated 4 years ago