Alternatives and similar repositories for cellassign

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

• CahanLab / singleCellNet
  SingleCellNet: classify single cells across species and platforms
  ☆139Updated 2 years ago
• theislab / kBET
  An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.
  ☆169Updated last year
• aertslab / AUCell
  AUCell: score single cells with gene regulatory networks
  ☆177Updated last year
• basilkhuder / Seurat-to-RNA-Velocity
  A guide to using a Seurat object in conjunction with RNA Velocity
  ☆139Updated 3 years ago
• theislab / scCODA
  A Bayesian model for compositional single-cell data analysis
  ☆183Updated 2 years ago
• ZJUFanLab / scCATCH
  Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data
  ☆234Updated 2 years ago
• satijalab / azimuth
  A Shiny web app for mapping datasets using Seurat v4
  ☆140Updated last year
• theislab / zellkonverter
  Conversion between scRNA-seq objects
  ☆193Updated 2 weeks 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
  ☆122Updated 2 years ago
• dpeerlab / SEACells
  SEACells algorithm for Inference of transcriptional and epigenomic cellular states from single-cell genomics data
  ☆169Updated 8 months ago
• saezlab / liana
  LIANA: a LIgand-receptor ANalysis frAmework
  ☆225Updated last year
• interactivereport / cellxgene_VIP
  Enables cellxgene to generate violin, stacked violin, stacked bar, heatmap, volcano, embedding, dot, track, density, 2D density, sankey a…
  ☆160Updated last month
• saezlab / dorothea
  R package to access DoRothEA's regulons
  ☆154Updated last year
• saeyslab / multinichenetr
  MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell trans…
  ☆170Updated 3 months ago
• immunogenomics / presto
  Fast Wilcoxon and auROC
  ☆198Updated last year
• GreenleafLab / chromVAR
  chromatin Variability Across Regions (of the genome!)
  ☆182Updated last year
• enblacar / SCpubr
  Generate high quality, publication ready visualizations for single cell transcriptomics data.
  ☆212Updated 4 months ago
• aertslab / SCENICprotocol
  A scalable SCENIC workflow for single-cell gene regulatory network analysis
  ☆169Updated 3 years ago
• bnprks / BPCells
  Scaling Single Cell Analysis to Millions of Cells
  ☆244Updated this week
• plger / scDblFinder
  Methods for detecting doublets in single-cell sequencing data
  ☆221Updated last month
• kharchenkolab / conos
  R package for the joint analysis of multiple single-cell RNA-seq datasets
  ☆217Updated last year
• compbiomed / singleCellTK
  Interactively analyze single cell genomic data
  ☆184Updated 2 months ago
• cellgeni / schard
  reticulate-free single cell format conversion
  ☆198Updated 2 weeks ago
• czbiohub-sf / tabula-muris
  Code and annotations for the Tabula Muris single-cell transcriptomic dataset.
  ☆194Updated 2 years ago
• neurorestore / Libra
  ☆178Updated 7 months ago
• SingleR-inc / SingleR
  Clone of the Bioconductor repository for the SingleR package.
  ☆198Updated last month
• cole-trapnell-lab / garnett
  Automated cell type classification
  ☆114Updated 11 months ago
• dviraran / xCell
  Cell types enrichment analysis
  ☆205Updated last year
• carmonalab / ProjecTILs
  Interpretation of cell states using reference single-cell maps
  ☆300Updated 4 months ago
• JEFworks-Lab / STdeconvolve
  Reference-free cell-type deconvolution of multi-cellular spatially resolved transcriptomics data
  ☆150Updated 4 months ago