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How can I load a file in CRAM format into my GH browser?

asked 2020-08-07 17:57:06 -0600

Whit Athey gravatar image

I have used the GH browser successfully on a number of BAM files. Now I have a genome in CRAM format and I can't seem to do anything with it. GH apparently won't load it. I can not understand the unix tools that may be available for converning files. Is there any simple way around this problem? Is there any way to make GH recognize and load a CRAM file? Maybe I don't have the most recent version?

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answered 2020-08-11 08:30:51 -0600

Hi Whit,

We have plans to make upgrades that will enable us to support reading CRAM files directly, but at the moment GenomeBrowse does not read them. CRAM is a complicated format and there is really only one good reference implementation of the code to read the file, so we have to make some infrastructure upgrades to get to the point where we can use that library directly.

Gabe

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Asked: 2020-08-07 17:57:06 -0600

Seen: 13 times

Last updated: Aug 11