DEprot.RMSE class

DEprot.RMSE class

Slots

original.DEprot.object:

Object of class DEprot used to compute the RMSE. Class: "ANY".

percentage.test:

Percentage of the total proteins that should be used to perform the comparisons. Class: "ANY".

seed:

Seed used for the randomization. Class: "ANY".

fraction.missing.values:

Fraction of missing values in the original table. Class: "ANY".

test.dataset:

Subset of the original table used for the comparisons. Class: "ANY".

imputed.objects:

List of the output of impute.counts (class DEprot) using the different imputation methods. Class: "ANY".

RMSE.tables:

List of data.frames, one per tested imputation method, containing the coordinates of the imputed values and including the following columns (Class: "ANY".):

• row.id:id of the row (protein)

• col.id:id of the column (sample)

• expected.values:value measured in the experiment

• imputation.method:id of the method used for the imputation

• imputed.values:value imputed by DEprot

• residuals:difference of the the values, imputed - expected

• sq.residuals:the squared value of the residuals

contrasts:

List of contrasts. each contrast is a vector indicating, in the order: metadata.table.column - groupA - groupB; (groupA / group B). Class: "ANY".

RMSE.scores:

. Class: "ANY".

correlation.plots:

. Class: "ANY".

density.residuals:

. Class: "ANY".