raw.input {MSstatsPTM} | R Documentation

## Example of input PTM dataset for LabelFree/DDA/DIA experiments.

### Description

It can be the output of MSstatsPTM converter ProgenesistoMSstatsPTMFormat or other MSstats converter functions (Please see MSstatsPTM_LabelFree_Workflow vignette). The dataset is formatted as a list with two data.tables named PTM and PROTEIN. In each data.table the variables are as follows:

### Usage

    raw.input

### Format

A list of two data.tables named PTM and PROTEIN with 1745 and 478 rows respectively.

### Details

#'

- ProteinName : Name of protein with modification site mapped in with an underscore. ie "Protein_4_Y474"

- PeptideSequence

- Condition : Condition (ex. Healthy, Cancer, Time0)

- BioReplicate : Unique ID for biological subject.

- Run : MS run ID.

- Intensity

- PrecursorCharge

- FragmentIon

- ProductCharge

- IsotopeLabelType

### Examples

    head(raw.input$PTM)
    head(raw.input$PROTEIN)

[Package MSstatsPTM version 1.2.4 Index]