Alternatives and similar repositories for SPATA2

Users that are interested in SPATA2 are comparing it to the libraries listed below

• ludvigla / semla
  ☆99Updated 4 months ago
• quadbio / Pando
  Multiome GRN inference.
  ☆134Updated last year
• MarcElosua / SPOTlight
  Spatial Transcriptomics Capture Location Deconvolution
  ☆200Updated 3 months ago
• Nanostring-Biostats / CosMx-Analysis-Scratch-Space
  This repository is an exploratory resource to accelerate opensource analysis of CosMx® Spatial Molecular Imager (SMI) data. Contained her…
  ☆93Updated last week
• carmonalab / UCell
  Gene set scoring for single-cell data
  ☆180Updated 3 months ago
• carmonalab / GeneNMF
  Methods to discover gene programs on single-cell data
  ☆173Updated 4 months ago
• neurorestore / Augur
  Cell type prioritization in single-cell data
  ☆136Updated last year
• saezlab / mistyR
  Multiview Intercellular SpaTial modeling framework
  ☆71Updated 3 weeks ago
• zktuong / ktplots
  Some tools for plotting single-cell data
  ☆177Updated 8 months ago
• pachterlab / voyager
  From geospatial to spatial -omics
  ☆100Updated last week
• edward130603 / BayesSpace
  Bayesian model for clustering and enhancing the resolution of spatial gene expression experiments.
  ☆167Updated last month
• enblacar / SCpubr
  Generate high quality, publication ready visualizations for single cell transcriptomics data.
  ☆216Updated last month
• theislab / scCODA
  A Bayesian model for compositional single-cell data analysis
  ☆188Updated 3 weeks ago
• JEFworks-Lab / MERINGUE
  characterizing spatial gene expression heterogeneity in spatially resolved single-cell transcriptomics data with nonuniform cellular dens…
  ☆84Updated 3 years ago
• aertslab / AUCell
  AUCell: score single cells with gene regulatory networks
  ☆183Updated last year
• saeyslab / multinichenetr
  MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell trans…
  ☆179Updated 5 months ago
• JEFworks-Lab / STdeconvolve
  Reference-free cell-type deconvolution of multi-cellular spatially resolved transcriptomics data
  ☆153Updated 6 months ago
• saezlab / OmnipathR
  R client for the OmniPath web service
  ☆152Updated 2 weeks ago
• prabhakarlab / Banksy
  BANKSY: spatial clustering
  ☆136Updated 3 months ago
• abelson-lab / scATOMIC
  Pan-Cancer Single Cell Classifier
  ☆83Updated last year
• saezlab / liana
  LIANA: a LIgand-receptor ANalysis frAmework
  ☆230Updated last year
• theislab / zellkonverter
  Conversion between scRNA-seq objects
  ☆198Updated 3 weeks ago
• wu-yc / scMetabolism
  Quantifying metabolism activity at the single-cell resolution
  ☆151Updated 7 months ago
• YosefLab / Compass
  In-Silico Modeling of Metabolic Heterogeneity using Single-Cell Transcriptomes
  ☆121Updated 3 months ago
• carmonalab / scGate
  marker-based purification of cell types from single-cell RNA-seq datasets
  ☆138Updated 6 months ago
• BayraktarLab / cell2fate
  Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.
  ☆85Updated 10 months ago
• scverse / anndataR
  AnnData interoperability in R
  ☆149Updated last week
• theislab / scib-pipeline
  Snakemake pipeline that works with the scIB package to benchmark data integration methods.
  ☆81Updated last year
• PaulingLiu / ROGUE
  Assessing the purity of single cell population
  ☆141Updated 3 years ago
• saezlab / visium_heart
  Spatial transcriptomics of heart tissue
  ☆107Updated 2 years ago