Alternatives and similar repositories for omicverse:

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

• zhanghao-njmu / SCP
  An end-to-end Single-Cell Pipeline designed to facilitate comprehensive analysis and exploration of single-cell data.
  ☆469Updated 10 months ago
• Starlitnightly / single_cell_tutorial
  单细胞分析的中文pipeline
  ☆202Updated 11 months ago
• hbctraining / Intro-to-scRNAseq
  ☆574Updated last week
• mdozmorov / scRNA-seq_notes
  A list of scRNA-seq analysis tools
  ☆683Updated 3 weeks ago
• hbctraining / scRNA-seq
  ☆555Updated 4 years ago
• morris-lab / CellOracle
  This is the alpha version of the CellOracle package
  ☆343Updated 2 months ago
• jinworks / CellChat
  R toolkit for inference, visualization and analysis of cell-cell communication from single-cell and spatially resolved transcriptomics
  ☆370Updated 3 months ago
• theislab / single-cell-best-practices
  https://www.sc-best-practices.org
  ☆869Updated last week
• mousepixels / sanbomics_scripts
  scripts and notebooks from sanbomics
  ☆395Updated 4 months ago
• broadinstitute / infercnv
  Inferring CNV from Single-Cell RNA-Seq
  ☆601Updated 2 months ago
• ventolab / CellphoneDB
  CellPhoneDB can be used to search for a particular ligand/receptor, or interrogate your own HUMAN single-cell transcriptomics data.
  ☆372Updated 2 months ago
• aertslab / pySCENIC
  pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which…
  ☆489Updated 11 months ago
• saeyslab / nichenetr
  NicheNet: predict active ligand-target links between interacting cells
  ☆526Updated last month
• chris-mcginnis-ucsf / DoubletFinder
  R package for detecting doublets in single-cell RNA sequencing data
  ☆452Updated last week
• omnideconv / immunedeconv
  A unified interface to immune deconvolution methods (CIBERSORT, EPIC, quanTIseq, TIMER, xCell, MCPcounter) and mouse deconvolution method…
  ☆482Updated 2 months ago
• zqfang / GSEApy
  Gene Set Enrichment Analysis in Python
  ☆612Updated this week
• immunogenomics / harmony
  Fast, sensitive and accurate integration of single-cell data with Harmony
  ☆559Updated 4 months ago
• cellgeni / sceasy
  A package to help convert different single-cell data formats to each other
  ☆416Updated last year
• Teichlab / cellphonedb
  ☆353Updated 3 years ago
• STOmics / Stereopy
  A toolkit of spatial transcriptomic analysis.
  ☆226Updated 2 weeks ago
• Teichlab / scg_lib_structs
  Collections of library structure and sequence of popular single cell genomic methods
  ☆454Updated 3 months ago
• sqjin / CellChat
  R toolkit for inference, visualization and analysis of cell-cell communication from single-cell data
  ☆679Updated last year
• crazyhottommy / ChIP-seq-analysis
  ChIP-seq analysis notes from Ming Tang
  ☆784Updated 7 months ago
• genecell / single-cell-papers-with-code
  Papers with code for single cell related papers
  ☆281Updated last year
• cole-trapnell-lab / monocle3
  ☆375Updated 2 months ago
• Teichlab / celltypist
  A tool for semi-automatic cell type classification
  ☆349Updated last week
• crazyhottommy / awesome_spatial_omics
  tools and notes for spatial omics
  ☆280Updated last month
• theislab / single-cell-tutorial
  Single cell current best practices tutorial case study for the paper:Luecken and Theis, "Current best practices in single-cell RNA-seq an…
  ☆1,463Updated 2 years ago
• crazyhottommy / scRNAseq-analysis-notes
  scRNAseq analysis notes from Ming Tang
  ☆684Updated 4 months ago
• junjunlab / scRNAtoolVis
  Useful functions to make your scRNA-seq plot more cool!
  ☆329Updated 2 months ago