Alternatives and similar repositories for Bering

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

• Moldia / Xenium_benchmarking
  Code used to benchmark Xenium
  ☆64Updated last year
• seqscope / ficture
  ☆36Updated this week
• raphael-group / paste2
  Probabilistic Alignment of Spatial Transcriptomics Experiments v.2
  ☆37Updated 5 months ago
• JEFworks-Lab / STalign
  Python tool for alignment of spatial transcriptomics (ST) data using diffeomorphic metric mapping
  ☆85Updated last year
• Banovich-Lab / Spatial_PF
  ☆29Updated 3 weeks ago
• wanglab-broad / CAST
  CAST package
  ☆40Updated 9 months ago
• theislab / spapros
  Python package for Probe set selection for targeted spatial transcriptomics.
  ☆40Updated last month
• CSOgroup / cellcharter
  A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.
  ☆129Updated last month
• emdann / milopy
  Python implementation of Milo for differential abundance testing on KNN graph
  ☆74Updated 5 months ago
• dpeerlab / ENVI
  ☆49Updated 2 months ago
• shuxiaoc / maxfuse
  ☆55Updated last year
• raphael-group / STARCH
  Spatial Transcriptomics Algorithm Reconstructing Copy-number Heterogeneity
  ☆27Updated last year
• QihuangZhang / CeLEry
  CeLEry: cell location recovery in single-cell RNA sequencing
  ☆35Updated 5 months ago
• prabhakarlab / Banksy_py
  ☆58Updated last week
• Teichlab / bin2cell
  Join subcellular Visium HD bins into cells
  ☆113Updated 2 months ago
• LouisFaure / scFates
  a scalable python suite for tree inference and advanced pseudotime analysis from scRNAseq data.
  ☆58Updated last month
• simonwm / tacco
  TACCO: Transfer of Annotations to Cells and their COmbinations
  ☆52Updated last year
• raphael-group / GASTON
  GASTON: deep learning algorithm learns "topography" of a tissue slice from spatial transcriptomics data
  ☆59Updated last month
• earmingol / cell2cell
  User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins
  ☆63Updated last week
• dcjones / proseg
  Probabilistic cell segmentation for in situ spatial transcriptomics
  ☆112Updated this week
• haniffalab / webatlas-pipeline
  A data pipeline built in Nextflow to process spatial and single-cell experiment data for visualisation in WebAtlas
  ☆64Updated last month
• quentinblampey / spatialdata_xenium_explorer
  Interoperability between SpatialData and the Xenium Explorer
  ☆24Updated last year
• wollmanlab / JSTA
  ☆15Updated 3 years ago
• drieslab / awesome-spatial-data-analysis
  Awesome list of tools and methods to perform spatial transcriptomic data analysis.
  ☆44Updated 4 years ago
• raphael-group / paste
  Probabilistic Alignment of Spatial Transcriptomics Experiments
  ☆89Updated 5 months ago
• digitalcytometry / cytospace
  CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data
  ☆132Updated 5 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…
  ☆24Updated last year
• almaan / stereoscope
  Spatial mapping of cell types by integration of transcriptomics data
  ☆93Updated 3 years ago
• YeoLab / bento-tools
  A Python toolkit for subcellular analysis of spatial transcriptomics data
  ☆81Updated 2 weeks ago
• StatBiomed / SpatialDM
  Spatial direct messaging detected by bivariate Moran
  ☆27Updated 3 weeks ago