.summarizeTMT {MSstatsTMT} | R Documentation

## Performs summarization for TMT data

### Description

Performs summarization for TMT data

### Usage

    .summarizeTMT(
      input,
      method,
      annotation,
      impute,
      max_quantile_censored,
      log_file_path
    )

### Arguments

`input` | data.table
`method` | "mstats"/"MedianPolish"/"LogSum"/"Median"
`annotation` | data.table with run and channel annotation
`impute` | only for method="msstats". TRUE (default) imputes missing values by Accelated failure model. FALSE uses minimum value to impute the missing value for each peptide precursor ion.
`max_quantile_censored` | We assume missing values are censored. maxQuantileforCensored is Maximum quantile for deciding censored missing value, for instance, 0.999. Default is Null.
`log_file_path` | path to a MSstats log file

### Value

data.table

[Package MSstatsTMT version 2.0.1 Index]