Alternatives and similar repositories for vizgen-postprocessing

Users that are interested in vizgen-postprocessing are comparing it to the libraries listed below

• klarman-cell-observatory / PowerAnalysisForSpatialOmics
  ☆27Updated 8 months ago
• quentinblampey / spatialdata_xenium_explorer
  Interoperability between SpatialData and the Xenium Explorer
  ☆23Updated 10 months ago
• saeyslab / napari-sparrow
  https://sparrow-pipeline.readthedocs.io/en/latest/
  ☆28Updated 3 weeks ago
• HiDiHlabs / ssam
  ☆27Updated 8 months ago
• camlab-bioml / astir
  astir | Automated cell identity from single-cell multiplexed imaging and proteomics 🖥🔬✨
  ☆53Updated last year
• scverse / spatialdata-io
  ☆62Updated this week
• theislab / spapros
  Python package for Probe set selection for targeted spatial transcriptomics.
  ☆38Updated 6 months ago
• saeyslab / harpy
  Single-cell spatial proteomics analysis that makes you happy!
  ☆30Updated last week
• wanglab-broad / CAST
  CAST package
  ☆40Updated 7 months ago
• JEFworks-Lab / STalign
  Python tool for alignment of spatial transcriptomics (ST) data using diffeomorphic metric mapping
  ☆80Updated last year
• LouisFaure / scFates
  a scalable python suite for tree inference and advanced pseudotime analysis from scRNAseq data.
  ☆57Updated last week
• Feanor007 / MESA
  A python package for Multiomics and Ecological Spatial Analysis (MESA)
  ☆18Updated 2 months ago
• linnarsson-lab / FISHscale
  Spatial analysis of FISH data
  ☆30Updated last month
• nolanlab / SpatialScore
  R script for calculating the SpatialScore as described in our manuscript: "Immune cell topography predicts response to PD-1 blockade in c…
  ☆14Updated 3 years ago
• pachterlab / concordex
  Identification of spatial homogeneous regions
  ☆21Updated 5 months ago
• Nanostring-Biostats / InSituType
  An R package for performing cell typing in SMI and other single cell data
  ☆37Updated last month
• sggao / celllens
  CellLENS: Cross-domain information fusion for enhanced cell population delineation in single-cell spatial-omics data
  ☆24Updated 2 weeks ago
• theislab / interactive_plotting
  ☆21Updated 4 years ago
• hubmapconsortium / spatial-transcriptomics-pipeline
  ☆29Updated last year
• acycliq / pciSeq
  A probabilistic cell typing algorithm for spatial transcriptomics.
  ☆24Updated last week
• wollmanlab / JSTA
  ☆14Updated 3 years ago
• BrainStOrmics / Spaco
  Spatially constrained color profiling for visualizing single-cell resolution spatial data
  ☆26Updated 9 months ago
• plevritis-lab / CELESTA
  Automate unsupervised machine learning cell type identification using both protein expressions and cell spatial neighborhood information …
  ☆35Updated last year
• StatBiomed / SpatialDM
  Spatial direct messaging detected by bivariate Moran
  ☆27Updated last month
• prabhakarlab / Banksy_py
  ☆53Updated 6 months ago
• YeoLab / bento-tools
  A Python toolkit for subcellular analysis of spatial transcriptomics data
  ☆80Updated 2 months ago
• immunitastx / monkeybread
  Analyzing cellular niches in spatial transcriptomics data
  ☆29Updated 7 months ago
• 10XGenomics / janesick_nature_comms_2023_companion
  Code companion to the publication "High resolution mapping of the breast cancer tumor microenvironment using integrated single cell, spat…
  ☆22Updated last year
• mbernste / SpatialCorr
  SpatialCorr: Identify gene sets with spatially varying correlation
  ☆17Updated last year
• nf-core / spatialxe
  ☆19Updated last week