filter_by_slope: Filter using the slope filter

In EmanuelSoda/ScreenR: Package to Perform High Throughput Biological Screening

Filter using the slope filter

Description

This function is used to improve the quality of the hits found. It computes a regression line in the different samples ad uses the slope of this line to see the trend

Usage

filter_by_slope(
  screenR_Object,
  genes,
  group_var_treatment,
  group_var_control,
  slope_control,
  slope_treatment
)

Arguments

screenR_Object	The ScreenR object obtained using the create_screenr_object
genes	The genes for which the slope as to be computed. Those genes are the result of the three statistical methods selection
group_var_treatment	The variable to use as independent variable (x) for the linear model of the treatment
group_var_control	The variable to use as independent variable (x) for the linear model of the the control
slope_control	A value used as threshold for the control slope
slope_treatment	A value used as threshold for the treatment slope

Value

A data frame with the slope for the treatment and the control for each gene

Examples

object <- get0("object", envir = asNamespace("ScreenR"))

filter_by_slope(
    screenR_Object = object, genes = c("Gene_1", "Gene_2"),
    group_var_treatment = c("T1", "T2", "TRT"),
    group_var_control = c("T1", "T2", "Time3", "Time4"),
    slope_control = 0.5, slope_treatment = 1
)

EmanuelSoda/ScreenR documentation built on Sept. 29, 2023, 12:33 a.m.