DEprot class

DEprot class

Slots

metadata

The data.frame corresponding to the metadata table describing the samples. Class: "ANY".

raw.counts

Numeric matrix (rows: proteins, columns: samples) of the raw counts. Class: "ANY".

norm.counts

Numeric matrix (rows: proteins, columns: samples) of the normalized counts. Class: "ANY".

random.counts

Numeric matrix (rows: proteins, columns: samples) of the randomized counts. Class: "ANY".

imputed.counts

Numeric matrix (rows: proteins, columns: samples) of the imputed counts. Class: "ANY".

log.base

Numeric value indicating the base of the logarithm expressing the values in the loaded data. Class: "ANY".

log.transformed

Logical value indicating whether the data are log-transformed or not. Class: "logical".

normalized

Logical value indicating whether the data are normalized. Class: "logical".

normalization.method

String (or any other class) value indicating the normalization method. Class: "ANY". Class: "ANY".

randomized

Logical value indicating whether the bottom distribution randomization has been applied. Class: "logical".

randomization.method

List indicating the parameters used for the randomization (bottom distribution). Class" "ANY".

imputed

Logical value indicating whether the data are imputed. Class: "logical".

imputation.method

String (or any other class) value indicating the imputation method. Class: "ANY".

boxplot.raw

Ggplot object showing the distribution of the raw values per sample. Class: "ANY".

boxplot.norm

Ggplot object showing the distribution of the normalized values per sample. Class: "ANY".

boxplot.random

Ggplot object showing the distribution of the randomized values per sample. Class: "ANY".

boxplot.imputed

Ggplot object showing the distribution of the imputed values per sample. Class: "ANY".

analyses.result.list

For this type of object the value is NULL. Class: "ANY".

contrasts

For this type of object the value is NULL. Class: "ANY".

differential.analyses.params

For this type of object the value is NULL. Class: "ANY".