Alternatives and similar repositories for scGTM

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

• welch-lab / MultiVelo
  Multi-omic velocity inference
  ☆110Updated 10 months ago
• emdann / milopy
  Python implementation of Milo for differential abundance testing on KNN graph
  ☆74Updated 7 months ago
• tanaylab / metacells
  Metacells - Single-cell RNA Sequencing Analysis
  ☆111Updated 11 months ago
• cistrome / MIRA
  Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.
  ☆64Updated 2 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 3 years ago
• zcang / SpaOTsc
  ☆45Updated last month
• simonwm / tacco
  TACCO: Transfer of Annotations to Cells and their COmbinations
  ☆56Updated 2 weeks ago
• pinellolab / dictys
  Context specific and dynamic gene regulatory network reconstruction and analysis
  ☆122Updated 2 weeks ago
• rajewsky-lab / novosparc
  ☆131Updated last year
• kunwang34 / PhyloVelo
  PhyloVelo, Phylogeny-based transcriptomic velocity of single cells
  ☆43Updated this week
• navinlabcode / CellTrek
  ☆125Updated 3 years ago
• livnatje / DIALOGUE
  DIALOGUE is a dimensionality reduction method that uses cross-cell-type associations to identify multicellular programs (MCPs) and map th…
  ☆113Updated last year
• KlugerLab / GeneTrajectory
  R implementation of GeneTrajectory
  ☆65Updated last year
• almaan / stereoscope
  Spatial mapping of cell types by integration of transcriptomics data
  ☆94Updated 3 years ago
• kharchenkolab / scITD
  Single-Cell Analysis of Inter-Individual Variability by Interpretable Tensor Decomposition
  ☆61Updated last year
• SydneyBioX / scJoint
  ☆60Updated 2 years ago
• xzhoulab / SPARK
  Spatially resolved transcriptomic analysis
  ☆59Updated 2 years ago
• AllonKleinLab / paper-data
  ☆20Updated this week
• mossjacob / pyslingshot
  Python implementation of the Slingshot pseudotime algorithm
  ☆64Updated last year
• LiQian-XC / sctour
  A deep learning architecture for robust inference and accurate prediction of cellular dynamics
  ☆68Updated 2 months ago
• BlishLab / scriabin
  Analysis of cell-cell communication at single-cell resolution
  ☆104Updated last year
• multitalk / awesome-cell-cell-communication
  Collection of computational tools for cell-cell communication inference for single-cell and spatially resolved omics
  ☆53Updated 3 months ago
• YosefLab / velovi
  ☆40Updated this week
• aertslab / pycisTopic
  pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.
  ☆74Updated last week
• AllonKleinLab / cospar
  ☆26Updated last year
• chriscainx / mnnpy
  An implementation of MNN (Mutual Nearest Neighbors) correct in python.
  ☆74Updated 2 years ago
• GreenleafLab / MPAL-Single-Cell-2019
  Publication Page for MPAL Paper 2019
  ☆83Updated 5 years ago
• axelalmet / flowsig
  Python package to find communication-driven intercellular flows from single-cell RNA-sequencing and spatial transcriptomics data.
  ☆77Updated 5 months ago
• YosefLab / Hotspot
  ☆126Updated 5 months ago
• snehamitra / SCARlink
  ☆59Updated 2 months ago