plotlinc-methods: Plot Objects Of The 'LINC' class

Description Usage Arguments Details Value Methods Compatibility Author(s) See Also Examples

Description

plotlinc is the generic function that creates plots based on objects of the LINC class.

Usage

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plotlinc(input,
         showCor,
         returnDat = FALSE)

Arguments

input

usually a LINCmatrix, LINCcluster, LINCbio or LINCsingle object

showCor

a vector of gene names; length 2 up to 6 elements; the first entry is the subject (see example)

returnDat

whether to return the data used to create the plot TRUE or not FALSE

Details

A plot will be created based on the information found in the slots: history and linCenvir of a LINCmatrix, LINCcluster, LINCbio or LINCsingle object. Using the argument showCor = ... will output scatterplots for one query, the first entry in ..., and up to five subjects (see example). This can be used to manually check the correlation of genes. Individual or modified plots can be generated by returning the plotting data with returnDat Unexpected extreme values may corrupt plots.

Value

an object of the class 'gtable' containing multiple 'grobs' or a 'list' if returnDat = TRUE

Methods

signature(input = "LINCbio", showCor = "character")

(see details)

signature(input = "LINCbio", showCor = "missing")

(see details)

signature(input = "LINCcluster", showCor = "character")

(see details)

signature(input = "LINCcluster", showCor = "missing")

(see details)

signature(input = "LINCmatrix", showCor = "character")

(see details)

signature(input = "LINCmatrix", showCor = "missing")

(see details)

signature(input = "LINCsingle", showCor = "character")

(see details)

signature(input = "LINCsingle", showCor = "missing")

(see details)

Compatibility

plotlinc(LINCmatrix, ...), plotlinc(LINCcluster, ...), plotlinc(LINCbio, ...),plotlinc(LINCsingle, ...), ...

Author(s)

Manuel Goepferich

See Also

querycluster ; feature

Examples

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data(BRAIN_EXPR)
plotlinc(crbl_matrix)
plotlinc(crbl_cluster)

# show correlations and expression; "647979" as query plus 4 subjects
plotlinc(crbl_cluster, showCor = c("647979", "6726", "3337", "3304" ,"3320"))

ManuelGoepferich/LINC documentation built on May 7, 2019, 2:46 p.m.