Sally Guthrie presented on Lightning at the Global Alliance for Genomics and Health Data Working Group meeting on October 13, 2015 at the New York Genome Center.
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Lightning Talk 2015-10-15
1. TILING GENOMES
Tag Set: … }
• k-mers
• edit distance > 1 from each other
• chosen before tiling
Map/align tag set
to genome:
• Each object shown here is a “Sequence”
• Each Sequence that is not a tag has 2 “GraphJoins”
2. Sarah (Sally) Guthrie: sguthrie@curoverse.com
Implementation under AGPLv3: https://github.com/curoverse/lightning
More details about tiling: https://peerj.com/preprints/1426/
(doi: 10.7287/peerj.preprints.1426v1)
TILING GENOMES
Called Genome Representations:
<a80, bc5, 0b4, … , 4b3, 92c>
<99b, 99b, 99b, …, f3d, 92c>
<a80, 49e, 49e, …, a52, 92c>
a80… 451 0b4 4b3… 92c
bc5 f3d
49e…
99b…
a52…
9f6…
• Compared
• Queried
• Used as input data for
machine learning