Alternatives and similar repositories for MERlin

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

• klarman-cell-observatory / PowerAnalysisForSpatialOmics
  ☆30Updated last year
• scverse / spatialdata-io
  ☆82Updated last week
• camlab-bioml / astir
  astir | Automated cell identity from single-cell multiplexed imaging and proteomics 🖥🔬✨
  ☆56Updated 5 months ago
• linnarsson-lab / FISHscale
  Spatial analysis of FISH data
  ☆34Updated 6 months ago
• PMBio / SpatialDE
  Test genes for Spatial Variation
  ☆15Updated 11 months ago
• Vizgen / vizgen-postprocessing
  The Vizgen Post-processing Tool (VPT) enables users to reprocess and refine the single-cell results of MERSCOPE experiments.
  ☆35Updated last year
• YeoLab / bento-tools
  A Python toolkit for subcellular analysis of spatial transcriptomics data
  ☆84Updated 3 weeks ago
• CaiGroup / seqFISH-PLUS
  ☆53Updated 4 years ago
• quentinblampey / spatialdata_xenium_explorer
  Interoperability between SpatialData and the Xenium Explorer
  ☆25Updated last year
• theislab / interactive_plotting
  ☆22Updated 5 years ago
• wanglab-broad / CAST
  CAST package
  ☆41Updated last year
• saeyslab / napari-sparrow
  https://sparrow-pipeline.readthedocs.io/en/latest/
  ☆33Updated last week
• ZhuangLab / MERFISH_analysis
  Matlab software for the analysis of MERFISH data and the construction of MERFISH probes.
  ☆50Updated 4 years ago
• ciccalab / SIMPLI
  SIMPLI is a highly configurable pipeline for the analysis of multiplexed imaging data.
  ☆39Updated 2 months ago
• ElementoLab / utag
  ☆39Updated last year
• theislab / spapros
  Python package for Probe set selection for targeted spatial transcriptomics.
  ☆47Updated last month
• HiDiHlabs / ssam
  ☆27Updated last year
• acycliq / pciSeq
  A probabilistic cell typing algorithm for spatial transcriptomics.
  ☆25Updated last month
• LouisFaure / scFates
  a scalable python suite for tree inference and advanced pseudotime analysis from scRNAseq data.
  ☆62Updated 3 months ago
• JEFworks-Lab / STalign
  Python tool for alignment of spatial transcriptomics (ST) data using diffeomorphic metric mapping
  ☆91Updated last year
• nolanlab / SpatialScore
  R script for calculating the SpatialScore as described in our manuscript: "Immune cell topography predicts response to PD-1 blockade in c…
  ☆16Updated 4 years ago
• scverse / spatialdata-notebooks
  ☆62Updated last week
• willtownes / nsf-paper
  Nonnegative spatial factorization for multivariate count data
  ☆62Updated 2 years ago
• wanglab-broad / ClusterMap
  ClusterMap for multi-scale clustering analysis of spatial gene expression
  ☆46Updated 5 months ago
• hubmapconsortium / spatial-transcriptomics-pipeline
  ☆29Updated last year
• seqscope / ficture
  ☆41Updated last month
• shuxiaoc / mario-py
  MARIO: single-cell proteomic data matching and integration using both shared and distinct features
  ☆22Updated 2 years ago
• BiomedicalMachineLearning / Spacell
  ☆27Updated 6 years ago
• giovp / spatialdata-sandbox
  ☆13Updated last month
• rockdeme / chrysalis
  Powerful and lightweight package to identify tissue compartments in spatial transcriptomics datasets.
  ☆18Updated 6 months ago