MSstatsSummarizeTMT {MSstatsTMT} | R Documentation

## Protein summarization for TMT data

### Description

Protein summarization for TMT data

### Usage

    MSstatsSummarizeTMT(
      input,
      method,
      impute,
      max_quantile_censored = NULL,
      log_file_path = NULL
    )

### Arguments

`input` | data.table with TM quant data
`method` | Four different summarization methods to protein-level can be performed : "msstats"(default), "MedianPolish", "Median", "LogSum".
`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]