User: Newbionf

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Newbionf10
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7 years, 5 months ago
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Posts by Newbionf

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Comment: C: Coveragebed, Depth/Breadth Of Coverage
... I've done this for a 10kb region on chr1 and get the followng output: $ more S.chr1.10kb.coverage chr1 0 10000 0 9989 10000 0.9989000 chr1 0 10000 1 8 10000 0.0008000 chr1 0 10000 2 1 10000 0.0001000 chr1 0 10000 5 ...
written 7.5 years ago by Newbionf10
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Comment: C: Coveragebed, Depth/Breadth Of Coverage
... I've done this for a 10kb region of chr1 on human and get the following output: $ more chr1.bed chr1 0 249250621 [golharam@vail 8b-coverage]$ more S.chr1.10kb.coverage chr1 0 10000 0 9989 10000 0.9989000 chr1 0 10000 1 8 10000 0.0008000 chr1 ...
written 7.5 years ago by Newbionf10
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Coveragebed, Depth/Breadth Of Coverage
... I'm using coverageBed to calculate the depth and breadth of coverage, but I'm not sure I'm doing this right. I want to calculate the two values for each human chromosome. For example, I've created a bed file with 1 chromosome. When I input my BAM file and the BED file, I get the following output ...
bedtools coverage written 7.5 years ago by Newbionf10 • updated 7.5 years ago by Istvan Albert ♦♦ 78k

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