Alternatives and similar repositories for cytograph2

Users that are interested in cytograph2 are comparing it to the libraries listed below

• quadbio / organoid_regulomes
  Reproducibility code for the manuscript: 'Inferring and perturbing cell fate regulomes in human cerebral organoids
  ☆28Updated last year
• hsmaan / Iniquitate
  Analysis of imbalanced data and its impacts in a scRNA-seq integration setting
  ☆30Updated 2 months ago
• AmandaKedaigle / OrganoidAtlas
  Code to go along with https://doi.org/10.1016/j.cell.2022.09.010
  ☆20Updated 3 years ago
• GreenleafLab / brainchromatin
  Code used to analyze single cell RNA and ATAC sequencing in developing human brain
  ☆33Updated 3 years ago
• satijalab / Mixscale
  ☆18Updated last month
• josephreplogle / guide_calling
  Tools for sgRNA calling in direct capture Perturb-seq data
  ☆34Updated last year
• immunogenomics / cna
  Covarying neighborhood analysis (CNA) is a method for finding structure in- and conducting association analysis with multi-sample single-…
  ☆51Updated this week
• AllenInstitute / scrattch.bigcat
  iterative clustering pipeline of big single cell datasets.
  ☆32Updated last month
• bendemeo / shannonca
  Information-based dimensionality reduction
  ☆29Updated 5 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
• HectorRDB / condiments
  Trajectory inference across multiple conditions with condiments: differential topology, progression, differentiation, and expression
  ☆28Updated 6 months ago
• forrest-lab / NATMI
  NATMI: Network Analysis Toolkit for the Multicellular Interactions
  ☆34Updated 4 years ago
• ratschlab / scim
  Code for Universal Single-Cell Matching with Unpaired Feature Sets
  ☆21Updated 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
• decomverse / ACTIONet
  ACTIONet single-cell analysis framework
  ☆41Updated 8 months ago
• JinmiaoChenLab / FastIntegration
  FastIntegrate integrates thousands of scRNA-seq datasets and outputs batch-corrected values for downstream analysis
  ☆23Updated 7 months ago
• jzhoulab / quasildr
  Quasilinear data representations for single-cell omics data analysis
  ☆42Updated 2 years ago
• Teichlab / sctk
  ☆38Updated 8 months ago
• lhqing / cemba_data
  Mapping pipeline for snmC-seq based technologies.
  ☆20Updated last year
• JEFworks-Lab / CRAWDAD
  Cell-type Relationship Analysis Workflow Done Across Distances
  ☆31Updated 3 months ago
• theislab / cross_system_integration
  ☆13Updated 2 months ago
• GET-Foundation / gcell
  Python playground for cell-type-specific biology
  ☆10Updated 3 weeks ago
• saezlab / greta
  Benchmark of GRNs using the GRETA pipeline
  ☆24Updated 2 months ago
• netbiolab / scHumanNet
  Analysis cell-type-specific functional gene network, with SCINET and HumanNetv3
  ☆43Updated this week
• devsystemslab / snapseed
  ☆20Updated 2 months ago
• tanlabcode / CytoTalk
  A novel computational method for inferring cell-type-specific signaling networks using single-cell transcriptomics data for better charac…
  ☆42Updated 8 months ago
• neurorestore / DE-analysis
  ☆39Updated 3 years ago
• KlugerLab / DAseq
  ☆41Updated 4 years ago
• DavisLaboratory / vissE
  An R/Bioconductor package to identify higher-order molecular phenotypes
  ☆16Updated last year
• wanglab-broad / CAST
  CAST package
  ☆40Updated 7 months ago