MSstatsHandleMissing {MSstats} | R Documentation

## Handle censored missing values

### Description

Handle censored missing values

### Usage

    MSstatsHandleMissing(
      input,
      summary_method,
      impute,
      missing_symbol,
      censored_cutoff
    )

### Arguments

`input` | 'data.table' in MSstats data format
`summary_method` | summarization method ('summaryMethod' parameter to 'dataProcess')
`impute` | if TRUE, missing values are supposed to be imputed ('MBimpute' parameter to 'dataProcess')
`missing_symbol` | 'censoredInt' parameter to 'dataProcess'
`censored_cutoff` | 'maxQuantileforCensored' parameter to 'dataProcess'

### Value

data.table

### Examples

    raw = DDARawData
    method = "TMP"
    cens = "NA"
    impute = TRUE
    MSstatsConvert::MSstatsLogsSettings(FALSE)
    input = MSstatsPrepareForDataProcess(raw, 2, NULL)
    input = MSstatsNormalize(input, "EQUALIZEMEDIANS")
    input = MSstatsMergeFractions(input)
    input = MSstatsHandleMissing(input, "TMP", TRUE, "NA", 0.999)
    head(input)

[Package MSstats version 4.1.1 Index]