Difference between revisions of "Calculating coverage"
(Created page with "= Introduction = Coverage can be calculated in several different ways and this pages aims to describe a few of them = Bedtools genomecov = This is one of the most commonly...") |
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| − | This is one of the most commonly used methods and requires loading of the bedtools module. The base of the command is | + | This is one of the most commonly used methods and requires loading of the bedtools module, also used in the callSNPs.py tool. The base of the command is |
bedtools genomecov -bga -ibam <bamfile> | bedtools genomecov -bga -ibam <bamfile> | ||
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| + | Explanation | ||
Revision as of 16:53, 28 June 2016
Introduction
Coverage can be calculated in several different ways and this pages aims to describe a few of them
Bedtools genomecov
This is one of the most commonly used methods and requires loading of the bedtools module, also used in the callSNPs.py tool. The base of the command is
bedtools genomecov -bga -ibam <bamfile>
Explanation
