xMLrenameR Documentation

Function to rename predictors used in machine learning

Description

xMLrename is supposed to rename predictors used in machine learning. It returns an object of class "sTarget".

Usage

xMLrename(sTarget, old_names, new_names)

Arguments

sTarget

an object of class "sTarget"

old_names

a vector for the original names of predictors to be renamed

new_names

a vector for the new names

Value

an object of class "sTarget"

Note

none

See Also

xMLrandomforest

Examples

## Not run: 
# Load the library
library(Pi)

## End(Not run)
RData.location <- "http://galahad.well.ox.ac.uk/bigdata"
## Not run: 
old_names <- colnames(sTarget$predictor)[-c(1,2)]
old_names_1 <- c('nGene_20000_constant', 'eGene_CD14', 'eGene_LPS2',
'eGene_LPS24', 'eGene_IFN', 'eGene_Bcell', 'eGene_CD4', 'eGene_CD8',
'eGene_Neutrophil', 'eGene_NK', 'eGene_Blood', 'cGene_Monocytes',
'cGene_Macrophages_M0', 'cGene_Macrophages_M1', 'cGene_Macrophages_M2',
'cGene_Neutrophils', 'cGene_Naive_CD4_T_cells',
'cGene_Total_CD4_T_cells', 'cGene_Naive_CD8_T_cells',
'cGene_Total_CD8_T_cells', 'cGene_Naive_B_cells',
'cGene_Total_B_cells', 'dGene', 'pGene', 'fGene')
old_names_2 <- c('nGene_20000_constant', 'eGene_Pi_eQTL_CD14',
'eGene_Pi_eQTL_LPS2', 'eGene_Pi_eQTL_LPS24', 'eGene_Pi_eQTL_IFN',
'eGene_Pi_eQTL_Bcell', 'eGene_Pi_eQTL_CD4', 'eGene_Pi_eQTL_CD8',
'eGene_Pi_eQTL_Neutrophil', 'eGene_Pi_eQTL_NK', 'eGene_Pi_eQTL_Blood',
'cGene_Monocytes', 'cGene_Macrophages_M0', 'cGene_Macrophages_M1',
'cGene_Macrophages_M2', 'cGene_Neutrophils', 'cGene_Naive_CD4_T_cells',
'cGene_Total_CD4_T_cells', 'cGene_Naive_CD8_T_cells',
'cGene_Total_CD8_T_cells', 'cGene_Naive_B_cells',
'cGene_Total_B_cells', 'dGene', 'pGene', 'fGene')
new_names <- c('nearbyGenes_nGene: nearby genes', 'eQTL_eGene: resting
state (CD14+)', 'eQTL_eGene: activating state (CD14+ by LPS2h)',
'eQTL_eGene: activating state (CD14+ by LPS24h)', 'eQTL_eGene:
activating state (CD14+ by IFN24h)', 'eQTL_eGene: B cells',
'eQTL_eGene: CD4+ T cells', 'eQTL_eGene: CD8+ T cells', 'eQTL_eGene:
neutrophils', 'eQTL_eGene: NK cells','eQTL_eGene: peripheral blood',
'HiC_cGene: monocytes', 'HiC_cGene: macrophages (M0)', 'HiC_cGene:
macrophages (M1)', 'HiC_cGene: macrophages (M2)', 'HiC_cGene:
neutrophils', 'HiC_cGene: CD4+ T cells (naive)', 'HiC_cGene: CD4+ T
cells (total)', 'HiC_cGene: CD8+ T cells (naive)', 'HiC_cGene: CD8+ T
cells (total)', 'HiC_cGene: B cells (naive)', 'HiC_cGene: B cells
(total)', 'Annotation_dGene: disease genes', 'Annotation_pGene:
phenotype genes', 'Annotation_fGene: function genes')
sTarget_renamed <- xMLrename(sTarget, old_names_1, new_names)
sTarget_renamed <- xMLrename(sTarget_renamed, old_names_2, new_names)

## End(Not run)