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bioconductor-batchsvg

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Identify Batch-Biased Features in Spatially Variable Genes

Installation

To install this package, run one of the following:

Conda
$conda install bioconda::bioconductor-batchsvg

Usage Tracking

1.2.0
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Description

BatchSVG is a feature-based Quality Control (QC) to identify SVGs on spatial transcriptomics data with specific types of batch effect. Regarding to the spatial transcriptomics data experiments, the batch can be defined as "sample", "sex", and etc.The BatchSVG method is based on binomial deviance model (Townes et al, 2019) and applies cutoffs based on the number of standard deviation (nSD) of relative change in deviance and rank difference as the data-driven thresholding approach to detect the batch-biased outliers.

About

Summary

Identify Batch-Biased Features in Spatially Variable Genes

Last Updated

Mar 1, 2026 at 18:01

License

Artistic-2.0

Supported Platforms

noarch