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Workflow differences between hg19 and hg38
27-Mar-2018, 07:46 AM
Post: #2
RE: Workflow differences between hg19 and hg38
Hi there,

The short read alignment tool, RUM, was initially used to map reads in GWIPS-viz. However, when the developers informed us that RUM was no longer being developed, we switched to bowtie, which RUM used. This is why the more recent tracks have been mapped with bowtie and also why RUM is not included in RiboGalaxy.

Regarding the initiating data for RPS23, what you suggest is indeed a possibility. When we map the older datasets to the hg38 genome, we will be able to check this and let you know. However, it may also originate from differences in datasets - compare for example some of the individual tracks for hg19 (goo.gl/Pj9dCA) and hg38 (goo.gl/4UHo9i).

Audrey
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RE: Workflow differences between hg19 and hg38 - audrey - 27-Mar-2018 07:46 AM

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