Can One Use The Ensembl Api To Retrieve Multiple Alignment Between The 46 Vertebrate Species
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9.2 years ago

Hi everyone, Does anyone know whether I can use ensembl API to retrieve multiple alignment between the 46 veterbrate species as in UCSC?

If it is not possible,and I have toI retrieve the alignment using UCSC, can I also retrieve the corresponding genomic coordinates in all the species?

I mean, ideally, like the following format:

human/2/23456-23467  A-TTTGCTCA
chimp/2/24556-25013   A-TTTCCTCA
mouse/4/25667-26031  A--T---GCTCA

Thank you!

coordinates alignment ensembl • 2.5k views
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Entering edit mode
7.7 years ago

You can retrieve Ensembl's own alignments via the API. We have various sets, but not the 46 UCSC species. Learn more here.

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