Alternatives and similar repositories for FISHscale

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

• Vizgen / vizgen-postprocessing
  The Vizgen Post-processing Tool (VPT) enables users to reprocess and refine the single-cell results of MERSCOPE experiments.
  ☆29Updated 11 months ago
• JEFworks-Lab / STalign
  Python tool for alignment of spatial transcriptomics (ST) data using diffeomorphic metric mapping
  ☆86Updated last year
• ZhuangLab / MERFISH_analysis
  Matlab software for the analysis of MERFISH data and the construction of MERFISH probes.
  ☆50Updated 4 years ago
• theislab / spapros
  Python package for Probe set selection for targeted spatial transcriptomics.
  ☆40Updated last month
• quentinblampey / spatialdata_xenium_explorer
  Interoperability between SpatialData and the Xenium Explorer
  ☆24Updated last year
• AllenInstitute / scrattch
  Single cell RNA-seq analysis for transcriptomic type characterization
  ☆37Updated 2 weeks ago
• jian-shu-lab / Bering
  ☆20Updated 4 months ago
• LouisFaure / scFates
  a scalable python suite for tree inference and advanced pseudotime analysis from scRNAseq data.
  ☆59Updated last week
• wanglab-broad / CAST
  CAST package
  ☆40Updated 9 months ago
• nf-core / spatialxe
  ☆20Updated this week
• YeoLab / bento-tools
  A Python toolkit for subcellular analysis of spatial transcriptomics data
  ☆82Updated 3 weeks ago
• shuxiaoc / maxfuse
  ☆55Updated last year
• theislab / interactive_plotting
  ☆22Updated 5 years ago
• scverse / spatialdata-io
  ☆68Updated this week
• BrainStOrmics / Spaco
  Spatially constrained color profiling for visualizing single-cell resolution spatial data
  ☆26Updated 11 months ago
• haniffalab / webatlas-pipeline
  A data pipeline built in Nextflow to process spatial and single-cell experiment data for visualisation in WebAtlas
  ☆64Updated last month
• raphael-group / STARCH
  Spatial Transcriptomics Algorithm Reconstructing Copy-number Heterogeneity
  ☆27Updated last year
• AllenInstitute / cell_type_mapper
  Repository for storing prototype functionality implementations for the BKP
  ☆33Updated this week
• acycliq / pciSeq
  A probabilistic cell typing algorithm for spatial transcriptomics.
  ☆24Updated 2 months ago
• wollmanlab / JSTA
  ☆15Updated 3 years ago
• raphael-group / GASTON
  GASTON: deep learning algorithm learns "topography" of a tissue slice from spatial transcriptomics data
  ☆59Updated 2 months ago
• klarman-cell-observatory / hdst
  ☆19Updated 5 years ago
• labsyspharm / scimap
  Spatial Single-Cell Analysis Toolkit
  ☆94Updated last month
• seqscope / ficture
  ☆36Updated 3 weeks ago
• plevritis-lab / CELESTA
  Automate unsupervised machine learning cell type identification using both protein expressions and cell spatial neighborhood information …
  ☆36Updated last year
• dcjones / proseg
  Probabilistic cell segmentation for in situ spatial transcriptomics
  ☆114Updated this week
• nolanlab / CODEX
  Image processing software for CODEX: driftcompensation, deconvolution, uploading and segmentation
  ☆48Updated 3 years ago
• raphael-group / paste2
  Probabilistic Alignment of Spatial Transcriptomics Experiments v.2
  ☆37Updated 5 months ago
• aristoteleo / spateo-viewer
  Web application demonstrating 3D modeling of spatial transcriptomics
  ☆21Updated 8 months ago
• quadbio / VoxHunt
  VoxHunt: Resolving human brain organoid heterogeneity through single-cell genomic comparison to spatial brain maps
  ☆47Updated last year