Alternatives and similar repositories for cellassign

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

• theislab / kBET
  An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.
  ☆162Updated last year
• GreenleafLab / chromVAR
  chromatin Variability Across Regions (of the genome!)
  ☆178Updated 11 months ago
• saeyslab / multinichenetr
  MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell trans…
  ☆147Updated 5 months ago
• saezlab / dorothea
  R package to access DoRothEA's regulons
  ☆149Updated last year
• dpeerlab / SEACells
  SEACells algorithm for Inference of transcriptional and epigenomic cellular states from single-cell genomics data
  ☆162Updated 2 months ago
• CahanLab / singleCellNet
  SingleCellNet: classify single cells across species and platforms
  ☆137Updated last year
• saezlab / liana
  LIANA: a LIgand-receptor ANalysis frAmework
  ☆208Updated 10 months ago
• theislab / zellkonverter
  Conversion between scRNA-seq objects
  ☆176Updated last week
• ZJUFanLab / scCATCH
  Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data
  ☆227Updated 2 years ago
• aertslab / AUCell
  AUCell: score single cells with gene regulatory networks
  ☆154Updated last year
• theislab / scCODA
  A Bayesian model for compositional single-cell data analysis
  ☆165Updated 2 years ago
• immunogenomics / symphony
  Efficient and precise single-cell reference atlas mapping with Symphony
  ☆105Updated 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.
  ☆203Updated last year
• basilkhuder / Seurat-to-RNA-Velocity
  A guide to using a Seurat object in conjunction with RNA Velocity
  ☆139Updated 3 years ago
• SingleR-inc / SingleR
  Clone of the Bioconductor repository for the SingleR package.
  ☆191Updated 3 weeks ago
• neurorestore / Libra
  ☆172Updated last month
• cortes-ciriano-lab / SComatic
  A tool for detecting somatic variants in single cell data
  ☆206Updated 9 months ago
• cellgeni / schard
  reticulate-free single cell format conversion
  ☆160Updated 6 months ago
• enblacar / SCpubr
  Generate high quality, publication ready visualizations for single cell transcriptomics data.
  ☆198Updated last month
• 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
• JiekaiLab / scDIOR
  scDIOR: Single cell data IO softwaRe
  ☆141Updated 3 years ago
• sunduanchen / Scissor
  Scissor package
  ☆222Updated last year
• constantAmateur / SoupX
  R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data
  ☆279Updated 2 years ago
• navinlabcode / copykat
  ☆239Updated last year
• aertslab / SCENICprotocol
  A scalable SCENIC workflow for single-cell gene regulatory network analysis
  ☆159Updated 2 years ago
• bnprks / BPCells
  Scaling Single Cell Analysis to Millions of Cells
  ☆217Updated last week
• HelenaLC / muscat
  Multi-sample multi-group scRNA-seq analysis tools
  ☆194Updated last month
• single-cell-genetics / cellsnp-lite
  Efficient genotyping bi-allelic SNPs on single cells
  ☆144Updated last year
• SCCAF / sccaf
  Single-Cell Clustering Assessment Framework
  ☆101Updated last year
• carmonalab / ProjecTILs
  Interpretation of cell states using reference single-cell maps
  ☆278Updated last month