bioc-issue-bot
commented
2 years ago Hi @Nina-Song
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: stJoincount
Type: Package
Title: stJoincount - Join count statistic for quantifying spatial correlation between clusters
Version: 0.99.0
Authors@R: c(
person("Jiarong", "Song", email="songjiar@usc.edu",role=c("cre","aut")),
person("Rania", "Bassiouni", email="rbassiou@usc.edu", role=c("aut")),
person("David","Craig",email="davidwcr@usc.edu", role=c("aut"))
)
Description: stJoincount, a bioinformatics tool uses join count statistic for quantifying spatial correlation between clusters.
This tool requires pre-processed spatial transcriptomics data, and either with user pre-defined clusters or standard louvain clusters from Cell Ranger outputs.
The first part of the algorithm is rasterization of samples for join count analysis. It rasterize each cluster with calculated extent and resolution, then merge to form a large mosaic.
The second part of the algorithm is to preform join count analysis on the integrated mosaic to quantify spatial correlation between clusters.
License: MIT + file LICENSE
Encoding: UTF-8
Depends:
R (>= 4.1)
Imports: Seurat,
utils,
graphics,
stats,
raster,
spdep,
sp,
reshape2,
pheatmap
LazyData: FALSE
RoxygenNote: 7.1.2
Suggests:
knitr,
rmarkdown
VignetteBuilder: knitr
biocViews: Transcriptomics, Clustering
vjcitn
Nina-Song
lshep
lazappi
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