Alternatives and similar repositories for scAI

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

• forrest-lab / NATMI
  NATMI: Network Analysis Toolkit for the Multicellular Interactions
  ☆34Updated 4 years ago
• buenrostrolab / FigR
  Functional Inference of Gene Regulation
  ☆45Updated last year
• KlugerLab / ALRA
  Imputation method for scRNA-seq based on low-rank approximation
  ☆78Updated last year
• wycwycpku / RSCORE
  ☆25Updated 3 years ago
• sankaranlab / SCAVENGE
  SCAVENGE is a method to optimize the inference of functional and genetic associations to specific cells at single-cell resolution.
  ☆85Updated last year
• cistrome / MIRA
  Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.
  ☆63Updated this week
• Teichlab / drug2cell
  Gene group activity utility functions for Scanpy
  ☆79Updated 6 months ago
• Teichlab / Pan_fetal_immune
  Collection of scripts for analysis of pan fetal immune atlas
  ☆27Updated 2 years ago
• bioinfoDZ / RISC
  A R package for integrated scRNA-seq data analysis using the RPCI algorithm
  ☆44Updated last year
• buenrostrolab / stimATAC_analyses_code
  All code associated with manuscript detailing scATAC and scRNA-seq following stimulus of PBMCs
  ☆41Updated 2 years ago
• immunogenomics / LISI
  Methods to compute Local Inverse Simpson's Index (LISI)
  ☆64Updated 3 years ago
• SchubertLab / mvTCR
  ☆53Updated 8 months 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
• Pinlyu3 / IReNA-v2
  Constructing gene regulatory networks by integrating scRNA-seq and scATAC-seq data
  ☆12Updated 3 years ago
• tanlabcode / CytoTalk
  A novel computational method for inferring cell-type-specific signaling networks using single-cell transcriptomics data for better charac…
  ☆42Updated 10 months ago
• zhengtaoxiao / Single-Cell-Metabolic-Landscape
  Pipeline for characterizing metebolic heterogeneity from single-cell RNA-seq data
  ☆22Updated 3 years ago
• snehamitra / SCARlink
  ☆54Updated 2 weeks ago
• edsgard / trendsceek
  Identify genes with spatial expression trends in single-cell gene expression data
  ☆50Updated 7 years ago
• haniffalab / FCA_liver
  All software used for “Decoding human fetal liver haematopoiesis” (Popescu, Botting, Stephenson et al., 2019).
  ☆39Updated 5 years ago
• cssmillie / ulcerative_colitis
  ☆63Updated 4 years ago
• LungCellAtlas / scRNAseq_pipelines
  Repository for the building, sharing and editing of scRNAseq pipelines for the Lung Cell Atlas
  ☆37Updated 4 years ago
• Single-Cell-Genomics-Group-CNAG-CRG / Tumor-Immune-Cell-Atlas
  Code repository for the Tumor Immune Cell Atlas (TICA) project
  ☆62Updated 3 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…
  ☆35Updated 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
• cailab-tamu / scTenifoldKnk
  R/MATLAB package to perform virtual knockout experiments on single-cell gene regulatory networks.
  ☆57Updated 6 months ago
• datapplab / AutoClass
  ☆44Updated 3 years ago
• BlishLab / scriabin
  Analysis of cell-cell communication at single-cell resolution
  ☆101Updated 10 months ago
• morris-lab / Capybara
  Capybara: A computational tool to measure cell identity and fate transitions
  ☆59Updated 3 years ago
• netbiolab / scHumanNet
  Analysis cell-type-specific functional gene network, with SCINET and HumanNetv3
  ☆43Updated last month
• faryabib / too-many-cells
  Cluster single cells and analyze cell clade relationships with colorful visualizations.
  ☆45Updated 3 years ago