annotation.mine {MSstatsTMT} | R Documentation

## Example of annotation file for raw.mine, which is the output of SpectroMine.

### Description

Annotation of example data, raw.mine, in this package. It should be prepared by users. The variables are as follows:

### Usage

    annotation.mine

### Format

A data frame with 72 rows and 5 variables.

### Details

- Run : MS run ID. It should be the same as R.FileName info in raw.mine

- Channel : Labeling information (TMT6_126, ..., TMT6_131). The channels should be consistent with the channel columns in raw.mine.

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

- Mixture : Mixture of samples with different TMT reagents, which can be analyzed in a single mass spectrometry experiment. The mixture may be fractionated into multiple fractions to increase the analytical depth. Then one mixture should correspond to multuple MS runs (One fraction is one MS run). For example, if 'Run' = 1, 2, 3 are three fractions of one TMT mixture of biological samples, then they should have same 'Mixture' value. Another special case is technical replicate. For example, if 'Run' = 4, 5, 6 are three technical replicates of one mixture, then they should match with same 'Mixture' value.

- BioReplicate : Unique ID for biological subject

### Examples

    head(annotation.mine)

[Package MSstatsTMT version 1.1.2 Index]