Alternatives and similar repositories for scAI:

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

• bioinfoDZ / RISC
  A R package for integrated scRNA-seq data analysis using the RPCI algorithm
  ☆44Updated last year
• cistrome / MIRA
  Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.
  ☆61Updated 11 months ago
• dpeerlab / magic
  MAGIC - imputation and de-noising single-cell RNA seq data sets
  ☆27Updated 5 years ago
• rargelaguet / mouse_organogenesis_10x_multiome_publication
  Code to reproduce the analysis of "Decoding gene regulation in the mouse embryo using single-cell multi-omics""
  ☆40Updated 2 years ago
• KChen-lab / bindSC
  Bi-order integration (in silico multi-omics data) of single cell RNA sequencing, single cell ATAC sequencing, spacial transcriptomics and…
  ☆34Updated last year
• Teichlab / Pan_fetal_immune
  Collection of scripts for analysis of pan fetal immune atlas
  ☆26Updated 2 years ago
• edsgard / trendsceek
  Identify genes with spatial expression trends in single-cell gene expression data
  ☆50Updated 7 years ago
• wycwycpku / RSCORE
  ☆25Updated 3 years ago
• buenrostrolab / FigR
  Functional Inference of Gene Regulation
  ☆41Updated 9 months ago
• kunwang34 / PhyloVelo
  PhyloVelo, Phylogeny-based transcriptomic velocity of single cells
  ☆43Updated last year
• matanhofree / crc-immune-hubs
  Principal analysis code used in for analysis of single cell RNAseq of primary untreated colon cancer. As described in: "Spatially organiz…
  ☆39Updated 3 years ago
• theislab / scib-pipeline
  Snakemake pipeline that works with the scIB package to benchmark data integration methods.
  ☆69Updated 2 months ago
• KlugerLab / ALRA
  Imputation method for scRNA-seq based on low-rank approximation
  ☆74Updated last year
• vibscc / DALI
  R-package for the analysis of single-cell TCR/BCR data in the Seurat ecosystem
  ☆19Updated 2 years ago
• LungCellAtlas / scRNAseq_pipelines
  Repository for the building, sharing and editing of scRNAseq pipelines for the Lung Cell Atlas
  ☆35Updated 4 years ago
• forrest-lab / NATMI
  NATMI: Network Analysis Toolkit for the Multicellular Interactions
  ☆34Updated 4 years ago
• FloWuenne / scFunctions
  Functions for single cell data analysis
  ☆31Updated 3 years ago
• immunogenomics / LISI
  Methods to compute Local Inverse Simpson's Index (LISI)
  ☆61Updated 3 years ago
• morris-lab / BiddyetalWorkflow
  This repository contains our CellTag workflow, as deployed in our 2018 Biddy et al., Nature paper.
  ☆32Updated 9 months ago
• cssmillie / ulcerative_colitis
  ☆60Updated 4 years ago
• csjansen / SOMatic
  SOMatic is a tool for building Self-Organizing Maps and linking multiple maps.
  ☆14Updated 7 months ago
• msraredon / NICHES
  Niche Interactions and Cellular Heterogeneity in Extracellular Signaling
  ☆52Updated 6 months ago
• jcao89757 / TESSA
  Mapping the Functional Landscape of TCR Repertoire
  ☆34Updated 3 years ago
• KlugerLab / DAseq
  ☆40Updated 4 years ago
• cailab-tamu / scTenifoldKnk
  R/MATLAB package to perform virtual knockout experiments on single-cell gene regulatory networks.
  ☆44Updated 3 months ago
• zhengtaoxiao / Single-Cell-Metabolic-Landscape
  Pipeline for characterizing metebolic heterogeneity from single-cell RNA-seq data
  ☆22Updated 3 years ago
• HYsxe / PRINT
  ☆35Updated 7 months ago
• Coolgenome / iTALK
  ☆59Updated 5 years ago
• snehamitra / SCARlink
  ☆50Updated 7 months ago
• Single-Cell-Genomics-Group-CNAG-CRG / Tumor-Immune-Cell-Atlas
  Code repository for the Tumor Immune Cell Atlas (TICA) project
  ☆61Updated 3 years ago