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bioclaw-hub-spatial-transcriptomics

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UpdatedJuly 6, 2026 at 12:06

Workflow for spatial transcriptomics preprocessing, domain detection, deconvolution, neighborhood analysis, and publication-ready spatial maps.

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ai4nucleome

ai4nucleome/BioMaster

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Biological Scientists, All OtherLife, Physical, and Social Science Occupations·SOC 19-1029

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SKILL.md

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name	bioclaw-hub-spatial-transcriptomics
description	Workflow for spatial transcriptomics preprocessing, domain detection, deconvolution, neighborhood analysis, and publication-ready spatial maps.
domain	single-cell
primary_tool	scanpy
methods	["scanpy","squidpy","matplotlib","seaborn"]
macro_tags	["workflow","spatial-transcriptomics","domain-detection","deconvolution","neighborhood-analysis","spatial-visualization"]
micro_tags	["scanpy","squidpy","matplotlib","seaborn","spatial-validation","coordinate-check","barcode-alignment","qc","normalization","hvg-selection","spatial-neighbors","pca","leiden","domain-detection","spatial-autocorrelation","marker-genes","deconvolution","cell-type-scoring","spatial-regression","neighborhood-enrichment","interaction-matrix","ripley","ligand-receptor","spatial-plotting","visualization","publication-figures","export","save-results","csv-output","h5ad"]
source	bioclaw-hub-spatial-transcriptomics
status	active
enabled	true

Bioclaw Hub Spatial Transcriptomics

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name	bioclaw-hub-spatial-transcriptomics
description	Workflow for spatial transcriptomics preprocessing, domain detection, deconvolution, neighborhood analysis, and publication-ready spatial maps.
domain	single-cell
primary_tool	scanpy
methods	["scanpy","squidpy","matplotlib","seaborn"]
macro_tags	["workflow","spatial-transcriptomics","domain-detection","deconvolution","neighborhood-analysis","spatial-visualization"]
micro_tags	["scanpy","squidpy","matplotlib","seaborn","spatial-validation","coordinate-check","barcode-alignment","qc","normalization","hvg-selection","spatial-neighbors","pca","leiden","domain-detection","spatial-autocorrelation","marker-genes","deconvolution","cell-type-scoring","spatial-regression","neighborhood-enrichment","interaction-matrix","ripley","ligand-receptor","spatial-plotting","visualization","publication-figures","export","save-results","csv-output","h5ad"]
source	bioclaw-hub-spatial-transcriptomics
status	active
enabled	true