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Question: What's the difference between a genome nd a canonical genome?
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gravatar for chris.bazinet
3.3 years ago by
chris.bazinet • 10
chris.bazinet • 10 wrote:

When choosing a reference genome, what's the difference, e.g. between hg38 and hg38 canonical?
galaxy • 2.1k views
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modified 3.3 years ago by Guy Reeves • 1.0k • written 3.3 years ago by chris.bazinet • 10
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gravatar for Guy Reeves
3.3 years ago by
Guy Reeves • 1.0k
Germany
Guy Reeves • 1.0k wrote:

Hi

I think this gives you the answer 

'For example, the image on the right shows indices for hg38 version of the human genome. You can see that there are actually three choices: (1) hg38, (2) hg38 canonical and (3) hg38 canonical female. The hg38 contains all chromosomes as well as all unplaced contigs. The hg38 canonical does not contain unplaced sequences and only consists of chromosomes 1 through 22, X, Y, and mitochondria. The  hg38 canonical female contains everything from the canonical set with the exception of chromosome Y.'

This is copied from https://wiki.galaxyproject.org/Learn/GalaxyNGS101

Thanks Guy 

 
ADD COMMENT • link written 3.3 years ago by Guy Reeves • 1.0k
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