compareCls {SubCellBarCode} | R Documentation

## Compare exon and gene centric classifications

### Description

Comparison of the gene centric and exon centric classification. Additionally, correlation analysis is performed using quantification data.

### Usage

    compareCls(geneCls, exonCls)

### Arguments

`geneCls,` | data frame gene centric classification output
`exonCls,` | data frame exon centric classification output

### Value

c.df

### Examples

    {

    exon.cls <- data.frame(Protein = c("ENSE00000331854",
                                         "ENSE00000331855",
                                         "ENSE00000331859"),
                             NeighborhoodCls = c("Cytosol",
                                          "Cytosol",
                                          "Cytosol"),
                             CompartmentCls = c("C1","C1","C1"),
                             Secretory = c(0.1, 0.1, 0.1),
                             Nuclear = c(0.2, 0.2, 0.2),
                             Cytosol = c(0.2, 0.2, 0.2),
                             Mitochondria = c(0.2, 0.2, 0.2),
                             S1 = c(0.2, 0.2, 0.2),
                             S2 = c(0.2, 0.2, 0.2),
                             S3 = c(0.2, 0.2, 0.2),
                             S4 = c(0.2, 0.2, 0.2),
                             N1 = c(0.2, 0.2, 0.2),
                             N2 = c(0.2, 0.2, 0.2),
                             N3 = c(0.2, 0.2, 0.2),
                             N4 = c(0.2, 0.2, 0.2),
                             C1 = c(0.2, 0.2, 0.2),
                             C2 = c(0.2, 0.2, 0.2),
                             C3 = c(0.2, 0.2, 0.2),
                             C4 = c(0.2, 0.2, 0.2),
                             C5 = c(0.2, 0.2, 0.2),
                             M1 = c(0.2, 0.2, 0.2),
                             M2 = c(0.2, 0.2, 0.2),
                             GeneSymbol = c("COPB1", "COPB1", "COPB1"),
                             PeptideCount = c(2, 4, 7))

    gene.cls <- data.frame(Protein = c("COPB1"),
    NeighborhoodCls = c("Cytosol"),
    CompartmentCls = c("C1"),
    Secretory = c(0.1),
    Nuclear = c(0.2),
    Cytosol = c(0.2),
    Mitochondria = c(0.2),
    S1 = c(0.2),
    S2 = c(0.2),
    S3 = c(0.2),
    S4 = c(0.2),
    N1 = c(0.2),
    N2 = c(0.2),
    N3 = c(0.2),
    N4 = c(0.2),
    C1 = c(0.2),
    C2 = c(0.2),
    C3 = c(0.2),
    C4 = c(0.2),
    C5 = c(0.2),
    M1 = c(0.2),
    M2 = c(0.2))

    comp.df <- compareCls(gene.cls, exon.cls)

    }

[Package SubCellBarCode version 1.6.0 Index]