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
  ☆297Updated 3 years ago
• cellgeni / sceasy
  A package to help convert different single-cell data formats to each other
  ☆445Updated last year
• navinlabcode / copykat
  ☆255Updated last month
• dviraran / SingleR
  SingleR: Single-cell RNA-seq cell types Recognition (legacy version)
  ☆307Updated 5 years ago
• liulab-dfci / MAESTRO
  Single-cell Transcriptome and Regulome Analysis Pipeline
  ☆294Updated 2 years ago
• broadinstitute / CellBender
  CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.
  ☆365Updated 3 months ago
• cortes-ciriano-lab / SComatic
  A tool for detecting somatic variants in single cell data
  ☆215Updated last year
• ZJUFanLab / scCATCH
  Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data
  ☆234Updated 2 years ago
• satijalab / seurat-wrappers
  Community-provided extensions to Seurat
  ☆351Updated 11 months ago
• basilkhuder / Seurat-to-RNA-Velocity
  A guide to using a Seurat object in conjunction with RNA Velocity
  ☆139Updated 3 years ago
• crazyhottommy / scATACseq-analysis-notes
  my notes for scATACseq analysis
  ☆131Updated last year
• carmonalab / ProjecTILs
  Interpretation of cell states using reference single-cell maps
  ☆299Updated 3 months ago
• broadinstitute / ssGSEA2.0
  Single sample Gene Set Enrichment analysis (ssGSEA) and PTM Enrichment Analysis (PTM-SEA)
  ☆299Updated last month
• NBISweden / workshop-scRNAseq
  Single cell RNA sequencing analysis course
  ☆225Updated last week
• welch-lab / liger
  R package for integrating and analyzing multiple single-cell datasets
  ☆421Updated 2 weeks ago
• quadbio / scRNAseq_analysis_vignette
  Tutorial for scRNA-seq data analysis beginners using R
  ☆227Updated 8 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.
  ☆279Updated this week
• BorchLab / scRepertoire
  A toolkit for single-cell immune profiling
  ☆354Updated last week
• sunduanchen / Scissor
  Scissor package
  ☆240Updated last year
• r3fang / SnapATAC
  Analysis Pipeline for Single Cell ATAC-seq
  ☆320Updated 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.
  ☆218Updated last year
• neurorestore / Libra
  ☆177Updated 6 months ago
• Teichlab / cellphonedb
  ☆360Updated 3 years ago
• cellgeni / schard
  reticulate-free single cell format conversion
  ☆193Updated last month
• aertslab / scenicplus
  SCENIC+ is a python package to build gene regulatory networks (GRNs) using combined or separate single-cell gene expression (scRNA-seq) a…
  ☆239Updated 9 months ago
• cellgeni / scRNA.seq.course
  Analysis of single cell RNA-seq data course
  ☆158Updated 3 years ago
• JiekaiLab / scDIOR
  scDIOR: Single cell data IO softwaRe
  ☆150Updated 3 years ago
• huayc09 / SeuratExtend
  ☆188Updated last week
• GreenleafLab / ArchR
  ArchR : Analysis of Regulatory Chromatin in R (www.ArchRProject.com)
  ☆436Updated 9 months ago
• aertslab / SCENICprotocol
  A scalable SCENIC workflow for single-cell gene regulatory network analysis
  ☆168Updated 2 years ago