Alternatives and similar repositories for cross_system_integration

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

• hsmaan / Iniquitate
  Analysis of imbalanced data and its impacts in a scRNA-seq integration setting
  ☆31Updated 11 months ago
• forrest-lab / NATMI
  NATMI: Network Analysis Toolkit for the Multicellular Interactions
  ☆35Updated 4 years ago
• JEFworks-Lab / veloviz
  RNA-velocity informed embeddings for visualizing cellular trajectories
  ☆44Updated 3 years ago
• zakieh-tayyebi / CellSpace
  Scalable sequence-informed embedding of single-cell ATAC-seq data with CellSpace
  ☆41Updated last year
• rs239 / velorama
  Gene regulatory network inference for RNA velocity and pseudotime data
  ☆28Updated 3 months ago
• wallet-maker / cytopus
  Single cell omics biology annotations
  ☆53Updated 9 months ago
• HectorRDB / condiments
  Trajectory inference across multiple conditions with condiments: differential topology, progression, differentiation, and expression
  ☆29Updated last year
• netbiolab / scHumanNet
  Analysis cell-type-specific functional gene network, with SCINET and HumanNetv3
  ☆45Updated 5 months ago
• immunogenomics / cna
  Covarying neighborhood analysis (CNA) is a method for finding structure in- and conducting association analysis with multi-sample single-…
  ☆56Updated 8 months ago
• bendemeo / shannonca
  Information-based dimensionality reduction
  ☆29Updated last year
• MarioniLab / StabMap
  Mosaic single cell data integration using non-overlapping features
  ☆37Updated 3 years ago
• mvinyard / ArchR-h5ad
  Parse ArchR arrow files to anndata h5ad
  ☆16Updated 2 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 3 years ago
• Janezjz / cellanova
  CellANOVA: Cell State Space Analysis of Variance for signal recovery in single cell batch integration
  ☆54Updated last year
• AllenInstitute / scrattch.bigcat
  iterative clustering pipeline of big single cell datasets.
  ☆36Updated 5 months ago
• KlugerLab / GeneTrajectory-python
  Python implementation of Gene Trajectory
  ☆30Updated last year
• JunyueCaoLab / EasySci
  Computational pipeline to process EasySci-RNA data.
  ☆22Updated 2 years ago
• JinmiaoChenLab / FastIntegration
  FastIntegrate integrates thousands of scRNA-seq datasets and outputs batch-corrected values for downstream analysis
  ☆23Updated last year
• doraadong / TraSig
  Inferring cell-cell interactions from pseudotime ordering of scRNA-Seq data
  ☆25Updated 3 years ago
• MagpiePKU / EpiTrace
  Cell age determination by scATAC-seq and bulk-ATAC-seq
  ☆32Updated last week
• loosolab / scanpro
  A modular tool for proportion analysis in single-cell sequencing data
  ☆24Updated 4 months ago
• buenrostrolab / FigR
  Functional Inference of Gene Regulation
  ☆51Updated last year
• saezlab / CollecTRI
  Gene regulatory network containing signed transcription factor-target gene interactions
  ☆97Updated 8 months ago
• CostaLab / scMEGA
  scMEGA: Single-cell Multiomic Enhancer-based Gene regulAtory network inference
  ☆44Updated last year
• YDaiLab / scRegulate
  Python Toolkit for Transcription Factor Activity Inference and Clustering of scRNA-seq Data
  ☆33Updated last month
• GreenleafLab / brainchromatin
  Code used to analyze single cell RNA and ATAC sequencing in developing human brain
  ☆35Updated 4 years ago
• wanglabtongji / STRIDE
  STRIDE (Spatial TRanscRIptomics DEconvolution by topic modelling) is a cell-type deconvolution tool for spatial transcriptomics by using …
  ☆26Updated 2 years ago
• azizilab / decipher
  A single-cell analysis toolkit to jointly analyze samples from distinct conditions
  ☆34Updated 10 months ago
• ajaynadig / TRADEtools
  ☆36Updated 11 months ago
• Teichlab / snp2cell
  cell type specific, trait-associated gene regulation
  ☆29Updated 10 months ago