Alternatives and similar repositories for sc-type

Users that are interested in sc-type 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
  ☆279Updated 2 years ago
• cellgeni / sceasy
  A package to help convert different single-cell data formats to each other
  ☆428Updated last year
• crazyhottommy / scATACseq-analysis-notes
  my notes for scATACseq analysis
  ☆128Updated last year
• cellgeni / scRNA.seq.course
  Analysis of single cell RNA-seq data course
  ☆138Updated 2 years ago
• basilkhuder / Seurat-to-RNA-Velocity
  A guide to using a Seurat object in conjunction with RNA Velocity
  ☆139Updated 3 years ago
• dviraran / SingleR
  SingleR: Single-cell RNA-seq cell types Recognition (legacy version)
  ☆298Updated 4 years ago
• navinlabcode / copykat
  ☆239Updated 11 months ago
• r3fang / SnapATAC
  Analysis Pipeline for Single Cell ATAC-seq
  ☆318Updated 2 years ago
• cellgeni / schard
  reticulate-free single cell format conversion
  ☆158Updated 6 months ago
• ZJUFanLab / scCATCH
  Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data
  ☆227Updated 2 years ago
• cortes-ciriano-lab / SComatic
  A tool for detecting somatic variants in single cell data
  ☆206Updated 9 months ago
• BorchLab / scRepertoire
  A toolkit for single-cell immune profiling
  ☆336Updated this week
• broadinstitute / ssGSEA2.0
  Single sample Gene Set Enrichment analysis (ssGSEA) and PTM Enrichment Analysis (PTM-SEA)
  ☆288Updated this week
• chris-mcginnis-ucsf / DoubletFinder
  R package for detecting doublets in single-cell RNA sequencing data
  ☆477Updated 3 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.
  ☆261Updated last week
• SingleR-inc / SingleR
  Clone of the Bioconductor repository for the SingleR package.
  ☆191Updated 2 weeks ago
• carmonalab / ProjecTILs
  Interpretation of cell states using reference single-cell maps
  ☆278Updated last month
• welch-lab / liger
  R package for integrating and analyzing multiple single-cell datasets
  ☆416Updated last month
• broadinstitute / CellBender
  CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.
  ☆332Updated 11 months ago
• aertslab / scenicplus
  SCENIC+ is a python package to build gene regulatory networks (GRNs) using combined or separate single-cell gene expression (scRNA-seq) a…
  ☆227Updated 5 months ago
• liulab-dfci / TRUST4
  TCR and BCR assembly from RNA-seq data
  ☆311Updated last week
• czbiohub-sf / scell_lung_adenocarcinoma
  This is the repository that contains the analysis of the lung adenocarcinoma single cell dataset
  ☆149Updated 4 years ago
• liulab-dfci / MAESTRO
  Single-cell Transcriptome and Regulome Analysis Pipeline
  ☆285Updated 2 years ago
• JiekaiLab / scDIOR
  scDIOR: Single cell data IO softwaRe
  ☆141Updated 3 years ago
• Teichlab / cellphonedb
  ☆355Updated 3 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
• dviraran / xCell
  Cell types enrichment analysis
  ☆198Updated last year
• bnprks / BPCells
  Scaling Single Cell Analysis to Millions of Cells
  ☆217Updated this week
• quadbio / scRNAseq_analysis_vignette
  Tutorial for scRNA-seq data analysis beginners using R
  ☆203Updated 3 months ago
• neurorestore / Libra
  ☆172Updated last month