Call Copy Number Variation from ATAC-seq data.
export PATH=$PATH:$(pwd)
macs pileup
to generate pileup track (bw
,bdg
) from input reads (bed
) with reads extend half of window size in both direction. tagAlign
to fragments in bed
, sort.bdg
and bw
format. bed
format) by given mask regions. tagAlign
, peaks
(openning regions).bed
, bdg
and bw
tagAlign
format. Please covert to fragment bed first. tagAlign
), peak regions (bed
or narrowPeaks
), mapb track (bw
), sliding window (stepsize
,windowsize
)bed
), log2CovRaito plots with segments (pngs
and tab
), background reads track (bw
)