Alternatives and similar repositories for DeepCCI:

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

• data2intelligence / SpaCET
  Spatial Cellular Estimator for Tumors
  ☆49Updated last week
• Teichlab / drug2cell
  Gene group activity utility functions for Scanpy
  ☆68Updated 2 months ago
• ZJUFanLab / scSpace
  an integrative algorithm to distinguish spatially variable cell subclusters by reconstructing cells onto a pseudo space with spatial tran…
  ☆22Updated last year
• dpeerlab / ENVI
  ☆45Updated 4 months ago
• WPZgithub / CEFCON
  Deciphering driver regulators of cell fate decisions from single-cell RNA-seq data
  ☆22Updated 4 months ago
• xiaoyeye / TFvelo
  ☆44Updated 10 months ago
• JiangBioLab / DeepTalk
  Deciphering cell-cell communication from spatially resolved transcriptomic data at single-cell resolution with subgraph-based attentional…
  ☆23Updated 6 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
• wallet-maker / cytopus
  Single cell omics biology annotations
  ☆50Updated this week
• theislab / regvelo
  inferring regulatory cellular dynamics
  ☆35Updated last month
• QihuangZhang / CeLEry
  CeLEry: cell location recovery in single-cell RNA sequencing
  ☆33Updated 3 weeks ago
• Teichlab / Pan_fetal_immune
  Collection of scripts for analysis of pan fetal immune atlas
  ☆26Updated 2 years ago
• StatBiomed / SpatialDM
  Spatial direct messaging detected by bivariate Moran
  ☆25Updated last month
• cliffren / PENCIL
  PENCIL is a novel tool for singlecell data analysis to identify phenotype associated subpopulations and informative genes simultaneously.
  ☆28Updated last year
• QuKunLab / MultiomeBenchmarking
  ☆42Updated last week
• theislab / scTab
  ☆57Updated 6 months ago
• Roy-lab / scMTNI
  ☆24Updated 2 months ago
• lanagarmire / Asgard
  ☆40Updated last year
• zakieh-tayyebi / CellSpace
  Scalable sequence-informed embedding of single-cell ATAC-seq data with CellSpace
  ☆38Updated 2 months ago
• emdann / milopy
  Python implementation of Milo for differential abundance testing on KNN graph
  ☆63Updated 3 weeks ago
• KlugerLab / GeneTrajectory
  R implementation of GeneTrajectory
  ☆53Updated 11 months ago
• LungCellAtlas / HLCA_reproducibility
  This repository contains all code used for the Human Lung Cell Atlas project.
  ☆48Updated last year
• SchubertLab / mvTCR
  ☆51Updated 4 months ago
• whhudson / spatialTCR
  ☆12Updated 2 years ago
• cantinilab / Circe
  Co-accessibility network from single-cell ATAC-seq data. Python code, based on Cicero package (R).
  ☆19Updated last month
• kunwang34 / PhyloVelo
  PhyloVelo, Phylogeny-based transcriptomic velocity of single cells
  ☆43Updated last year
• earmingol / cell2cell
  User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins
  ☆59Updated 8 months ago
• cistrome / MIRA
  Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.
  ☆61Updated 10 months ago
• AllonKleinLab / cospar
  ☆26Updated last year
• AllenInstitute / scrattch.bigcat
  iterative clustering pipeline of big single cell datasets.
  ☆29Updated last month