plotLFRDistribution-methods: Plot the LFR distribution
In chedonat/DigitalPicoTools: DIGITAL ANALYSIS OF PICOGRAM QUANTITIES OF DNA

Description Usage Arguments Value See Also Examples

Plot the distribution of the LFR across the genome and across all the wells. Suitable to be call on genomic region of less than 2MB length. Segments represent fragments, the y-axis is the wells and the x-axis the genomic location. The thickness of the segment is proportional to the averagecoverage. The blue segment is an illustration of a fagment of 100kbp (if Region <5Mb) or 1Mb if (region >5Mb) with and average coverage of 1.

1	plotLFRDistribution(object, chrom, region = NULL, minLength = 10000)

`chrom`	the chromosome to be considered
`region`	The genomic region to plot. For best results consider a region of less than 2MB.
`minLength`	Conside ronly the LFR having a length greater or equal to minLength.
`x`	an object of class `LFRset`

”

plot, codesummary.LFRset, getLFRset, getWells

cat('\n Loading an LFRset data frame ')
LFR_11152Tissue_10k_file<-system.file('extdata',
       'D1000_10k_allfragments.tsv.gz',package = 'DigitalPicoTools')
D1000_10k_11152Tissue_LFR=read.table(file=LFR_11152Tissue_10k_file)
D1000_10k_11152Tissue_LFRset=LFRset(Table=D1000_10k_11152Tissue_LFR)
cat('\n Plotting the Fragment Distribution ')
plotLFRDistribution(D1000_10k_11152Tissue_LFRset,'chr2',region='chr22:22000000-23000000')