|bamCount||Count reads in bam files|
|bamParseLengths||Parse reads in bam files by insert size.|
|bedHist||Plot a histogram of interval sizes in bed files|
|bedParseLengths||Parse intervals in bed files by size.|
|bedSizes||Retreive interval sizes in bed files|
|bedSort||Sort beds by chromosome and position|
|bgHist||Plot a histogram of scores sizes in bedGraph files|
|bgScores||Retreive scores in bedGraph files|
|sam.stats||Get summary statistics for bam files|
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