Skip to contents

Filter using the slope filter

Source: R/filter_by.R
filter_by_slope.Rd

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
)
#> [1]        NA  2.163455 -3.866243
#> # A tibble: 1 × 3
#>   Gene   slope_control slope_treatment
#>   <chr>          <dbl>           <dbl>
#> 1 Gene_2         -3.87           -4.07