spatialTIME

The goal of spatialTIME is to perform basic analysis and plotting of IF data from Vectra.

Installation

You can install spatialTIME from GitHub with:

# install.packages("devtools")
# devtools::install_github("fridleylab/spatialTIME")
install.packages("spatialTIME", repos = c('https://fridleylab.r-universe.dev', 'https://cloud.r-project.org'))

Usage

spatialTIME currently implements both univariate and bi-variate Ripley’s K analyses. The basis of the spatialTIME functions is the creation of the mif object.

x <- create_mif(clinical_data = example_clinical,
                sample_data = example_summary,
                spatial_list = example_spatial,
                patient_id = "deidentified_id", sample_id = "deidentified_sample",
                clean_columns = TRUE)
x
## 229 patients spanning 229 samples and 5 spatial data frames were found

Additional resources

For a more in-depth description of the methods used, please see the included vignette.

For a point-and-click resource that performs related analyses please check out iTIME.