CRAN/E | PRECAST

PRECAST

Embedding and Clustering with Alignment for Spatial Datasets

Installation

About

An efficient data integration method is provided for multiple spatial transcriptomics data with non-cluster-relevant effects such as the complex batch effects. It unifies spatial factor analysis simultaneously with spatial clustering and embedding alignment, requiring only partially shared cell/domain clusters across datasets. More details can be referred to Wei Liu, et al. (2023) doi:10.1038/s41467-023-35947-w.

github.com/feiyoung/PRECAST
Bug report File report

Key Metrics

Version 1.6.5
R ≥ 4.0.0
Published 2024-03-19 9 days ago
Needs compilation? yes
License GPL-3
CRAN checks PRECAST results

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Maintainer

Maintainer

Wei Liu

liuweideng@gmail.com

Authors

Wei Liu

aut / cre

Yi Yang

aut

Jin Liu

aut

Material

README
Reference manual
Package source

Vignettes

PRECAST: Human Breast Cancer Data Analysis
PRECAST: DLPFC Single Sample Analysis
PRECAST: Four DLPFC Sample Analysis
PRECAST
PRECAST: simulation

macOS

r-release

arm64

r-oldrel

arm64

r-release

x86_64

Windows

r-devel

x86_64

r-release

x86_64

r-oldrel

x86_64

Old Sources

PRECAST archive

Depends

parallel
gtools
R ≥ 4.0.0

Imports

GiRaF
MASS
Matrix
mclust
methods
purrr
utils
Seurat
cowplot
patchwork
scater
pbapply
ggthemes
dplyr
ggplot2
stats
DR.SC
scales
ggpubr
graphics
colorspace
Rcpp ≥1.0.5

Suggests

knitr
rmarkdown

LinkingTo

Rcpp
RcppArmadillo

Reverse Imports

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