ISS_compare: Compare multiple ISS data based on gene

In mashranga/MolDia: Single cell In-Situ sequencing (ISS) data analysis

Description

Compare multiple ISS data based on number of reads per gene and observe their goodness of fit and correlation.

Usage

ISS_compare(..., logdata = FALSE, label = TRUE, levelCI = 0.99,
  live = FALSE)

Arguments

...	Input data in class MolDiaISS. At least 2 dataset or more. Output of readISS.
logdata	log2 apply to data or not. Deafult is FALSE.
label	Label each point. Default is TRUE.
levelCI	Level of confidence interval to use. Default is 0.95
live	Show plot in interactive mode. Default is FALSE

Examples

hcleft   <- readISS(file = system.file("extdata", "Hypocampus_left.csv", package="MolDia"),  cellid = "CellId",centX = "centroid_x", centY = "centroid_y")
hcright  <- readISS(file = system.file("extdata", "Hypocampus_right.csv", package="MolDia"), cellid = "CellId",centX = "centroid_x", centY = "centroid_y")
hcleft_1  <- readISS(file = system.file("extdata", "Hypocampus_left.csv", package="MolDia"),  cellid = "CellId",centX = "centroid_x", centY = "centroid_y")
hcright_1 <- readISS(file = system.file("extdata", "Hypocampus_right.csv", package="MolDia"), cellid = "CellId",centX = "centroid_x", centY = "centroid_y")
res <- ISS_compare(hcleft, hcright, label = T, levelCI = 0.99, live = F, logdata = FALSE)
res <- ISS_compare(hcleft, hcright, label = T, levelCI = 0.8, live = F, logdata = TRUE)

mashranga/MolDia documentation built on May 26, 2019, 9:36 a.m.