Description Usage Arguments See Also Examples
Data for the graphic is generated by a call to grangesData
.
1 2 3 4 5 6 7 8 9 | xyplotList(granges, se, param = HmmTrellisParam())
## S4 method for signature 'HmmGRanges,SnpArrayExperiment'
xyplotList(granges, se, param = HmmTrellisParam())
## S4 method for signature 'GRangesList,SnpArrayExperiment'
xyplotList(granges, se, param = HmmTrellisParam())
xygrid(trellis_plot, viewports, granges)
|
granges |
a |
se |
a |
param |
trellis parameters for plotting HMM |
trellis_plot |
an object of class |
viewports |
a list of viewports as provided by the |
1 2 3 4 5 6 7 8 9 10 11 | if(require("BSgenome.Hsapiens.UCSC.hg18")){
bsgenome <- BSgenome.Hsapiens.UCSC.hg18
snp_exp <- getExampleSnpExperiment(bsgenome)
seqlevels(snp_exp, pruning.mode="coarse") <- "chr22"
fit <- hmm2(snp_exp)
g <- reduce(hemizygous(fit), min.gapwidth=500e3)
trellis_param <- HmmTrellisParam()
fig <- xyplotList(g, snp_exp, trellis_param)
vps <- viewports()
xygrid(fig[[1]], vps, g)
}
|
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