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RobertsLab / project-olympia.oyster-genomic

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Genome version used for MBD BS mapping? #25

Closed ksil91 closed 7 years ago

ksil91 commented 7 years ago

I'm going to be starting the 2bRAD genotyping from my new sequencing run, and I wanted to make sure I am using the same genome assembly and same filtering that is being used for the MBD BS mapping. This is what will be presented on at NSA. As far as I know, there is a scaffold.fa.fill from 20160314, and Ostrea_lurida.scafSeq from 20160512. Which one are you using, and how did you filter it?

sr320 commented 7 years ago

We are using a modified version of the 210601512 file. Specifically only using scaffolds that are at least 10k bp in length. Available @ http://owl.fish.washington.edu/halfshell/2016-11-oly-annotation/Ostrea_lurida-Scaff-10k.fa On Fri, Feb 17, 2017 at 2:36 PM ksil91 notifications@github.com wrote:

Assigned #25 https://github.com/RobertsLab/project-olympia.oyster-genomic/issues/25 to @sr320 https://github.com/sr320.

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