parseSpotFile: Parse spot detector output

In jbergenstrahle/SpatialCPie: Cluster analysis of Spatial Transcriptomics data

Description

Parses the output from the ST spot detector tool for use with SpatialCPie.

Usage

parseSpotFile(file)

Arguments

file

spot file

Value

data.frame with columns "x" and "y" specifying the pixel coordinates of each spot

Examples

## Create spot file
data <- rbind(
    c(7, 18, 7.00, 18.07, 563.2, 947.0),
    c(8, 11, 8.00, 11.04, 612.5, 627.7)
)
filename <- tempfile()
write.table(
    data,
    file = filename,
    sep = "\t",
    quote = FALSE,
    col.names = c("x", "y", "new_x", "new_y", "pixel_x", "pixel_y")
)

## Parse spot file
parseSpotFile(filename)

## Delete spot file
unlink(filename)

jbergenstrahle/SpatialCPie documentation built on April 5, 2020, 7:56 a.m.