createHicPainteRObj: Create an hicPainteR object

In RMalinverni/hicPainteR: Visualize -C data

Description

create an hicPainteR object starting from a GenomicInteractions object

Usage

createHicPainteRObj((contact,mapType,Name,zoom=NA,high_fact=1e6,pCol="red",alpha=0.05,enhance=NA,colBin=500,
       use_ramp=FALSE,ramp=NA,log=FALSE,pchP=".",lwdP=2,ltyP=1,cexP=2,scores=NA,use.scores=FALSE,...))

Arguments

contact	GenomicInteractions object
mapType	character - possible choises are cMAP, TAD, Loops
Name	character - is the name of the object ( default NA )
high_fact	numeric - value for manage the proportion of graph ( default 1e6 ) (TODO control if making it automatic)
pCol	charachter - color used if use_ramp == FALSE ( default "red" )
enhance	numeric - transform factor for counts on cMap ( default = NA )
colBin	numeric - used to calculate the number of the palette when use_ramp == TRUE ( default 500 )
use_ramp	logic - select to switch from flat color to colorRampPalette ( default FALSE )
ramp	colorRampPalette object - palette used when use_ramp == TRUE, when is set to NA ramp= ( default NA )
log	logic - transform the counts of the contact object in logaritmic ( default NA )
pchP	character - pch code for points drawing
cexP	numeric - cex value for point drawing
lwdP	numeric - lwd thick for line drawing
ltyP	numeric - lty code for line drawing

References

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See Also

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Examples

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RMalinverni/hicPainteR documentation built on Nov. 11, 2020, 11:08 a.m.