bioc-issue-bot
commented
1 month ago Hi @PratibhaPanwar
Thanks for submitting your package. We are taking a quick look at it and you will hear back from us soon.
The DESCRIPTION file for this package is:
Package: clustSIGNAL
Type: Package
Title: clustSIGNAL: a spatial clustering method
Version: 0.99.0
Authors@R: c(
person("Pratibha", "Panwar", email = "pratibhapanwar.4@gmail.com",
role = c("cre", "aut", "ctb"), comment = c(ORCID = "0000-0002-7437-7084")),
person("Boyi", "Guo", email = "boyi.guo.work@gmail.com", role = "aut"),
person("Haowen", "Zhao", email = "haowen.zhou19@gmail.com", role = "aut"),
person("Stephanie", "Hicks", email = "shicks19@jhu.edu", role = "aut"),
person("Shila", "Ghazanfar", email = "shazanfar@gmail.com",
role = c("aut", "ctb"), comment = c(ORCID = "0000-0001-7861-6997")))
Description: clustSIGNAL: clustering of Spatially Informed Gene expression with
Neighbourhood Adapted Learning. A tool for adaptively smoothing and clustering
gene expression data. clustSIGNAL uses entropy to measure heterogeneity of
cell neighbourhoods and performs a weighted, adaptive smoothing, where
homogeneous neighbourhoods are smoothed more and heterogeneous neighbourhoods
are smoothed less. This not only overcomes data sparsity but also incorporates
spatial context into the gene expression data. The resulting smoothed gene
expression data is used for clustering and could be used for other downstream
analyses.
License: GPL-2
Encoding: UTF-8
URL: https://sydneybiox.github.io/clustSIGNAL/
BugReports: https://github.com/sydneybiox/clustSIGNAL/issues
biocViews: Clustering, Software, GeneExpression, Spatial, Transcriptomics, SingleCell
RoxygenNote: 7.3.2
Depends: R (>= 4.4.0), SpatialExperiment
Imports: BiocParallel,
BiocNeighbors,
bluster,
scater,
harmony,
SingleCellExperiment,
SummarizedExperiment,
methods
Suggests: knitr,
BiocStyle,
aricode,
cluster,
distances,
dplyr,
ggplot2,
patchwork,
scattermore
VignetteBuilder: knitr
lshep
svalvaro
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