Alternatives and similar repositories for ENVI:

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

• BayraktarLab / cell2fate
  Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.
  ☆36Updated 5 months ago
• drieslab / awesome-spatial-data-analysis
  Awesome list of tools and methods to perform spatial transcriptomic data analysis.
  ☆39Updated 3 years ago
• StatBiomed / SpatialDM
  Spatial direct messaging detected by bivariate Moran
  ☆25Updated last month
• QihuangZhang / CeLEry
  CeLEry: cell location recovery in single-cell RNA sequencing
  ☆33Updated this week
• raphael-group / paste2
  Probabilistic Alignment of Spatial Transcriptomics Experiments v.2
  ☆34Updated last year
• tabdelaal / SpaGE
  Enhancing spatial transcriptomics data by predicting the expression of unmeasured genes from a dissociated scRNA-seq data
  ☆33Updated 7 months ago
• MICS-Lab / novae
  Graph-based foundation model for spatial transcriptomics data. Zero-shot spatial domain inference, batch-effect correction, and many othe…
  ☆30Updated this week
• wallet-maker / cytopus
  Single cell omics biology annotations
  ☆49Updated 3 weeks ago
• AllonKleinLab / cospar
  ☆26Updated last year
• raphael-group / CalicoST
  Inferring allele-specific copy number aberrations and tumor phylogeography from spatially resolved transcriptomics
  ☆30Updated this week
• YosefLab / velovi
  ☆39Updated last week
• CSOgroup / cellcharter
  A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.
  ☆106Updated this week
• wanglab-broad / CAST
  CAST package
  ☆29Updated 3 months ago
• JEFworks-Lab / STalign
  Python tool for alignment of spatial transcriptomics (ST) data using diffeomorphic metric mapping
  ☆71Updated last year
• simonwm / tacco
  TACCO: Transfer of Annotations to Cells and their COmbinations
  ☆44Updated 7 months ago
• BiomedicalMachineLearning / Spacell
  ☆25Updated 5 years ago
• shuxiaoc / mario-py
  MARIO: single-cell proteomic data matching and integration using both shared and distinct features
  ☆22Updated last year
• zcang / SpaOTsc
  ☆45Updated 2 years ago
• kharchenkolab / scITD
  Single-Cell Analysis of Inter-Individual Variability by Interpretable Tensor Decomposition
  ☆55Updated 10 months ago
• zhengli09 / BASS
  Bayesian Analytics for Spatial Segmentation
  ☆23Updated 4 months ago
• StatBiomed / UniTVelo
  UniTVelo, Temporally Unified RNA Velocity for single cell trajectory inference
  ☆26Updated 3 months ago
• Moldia / Xenium_benchmarking
  Code used to benchmark Xenium
  ☆43Updated 7 months ago
• earmingol / cell2cell
  User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins
  ☆59Updated 8 months ago
• Teichlab / drug2cell
  Gene group activity utility functions for Scanpy
  ☆67Updated last month
• YingMa0107 / IRIS
  Integrative and Reference-Informed Spatial Domain Detection for Spatial Transcriptomics
  ☆30Updated 2 weeks 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
• YangLabHKUST / Portal
  Adversarial domain translation networks for integrating large-scale atlas-level single-cell datasets
  ☆30Updated last year
• scverse / spatialdata-notebooks
  ☆41Updated this week
• emdann / milopy
  Python implementation of Milo for differential abundance testing on KNN graph
  ☆62Updated this week
• LiHongCSBLab / SOAPy
  ☆18Updated last month