Author: Phillip Davis; John Bagnoli; David Yarmosh; Alan Shteyman; Lance Presser; Sharon Altmann; Shelton Bradrick; Joseph A. Russell
Title: Vorpal: A novel RNA virus feature-extraction algorithm demonstrated through interpretable genotype-to-phenotype linear models Document date: 2020_3_2
ID: 48mtdwuv_59
Snippet: introduced instability into the model parameter estimation (data not shown). Contribution to 705 frequency is determined not by cumulative sum of count across every instance but rather 706 frequency of presence across the sample instances. This is identical to the way the "TopN" score 707 is calculated for K-mers in PriMux primer design software 37 . Using a K-mer frequency filter 708 selects for a conserved variance signal. This is a reasonable .....
Document: introduced instability into the model parameter estimation (data not shown). Contribution to 705 frequency is determined not by cumulative sum of count across every instance but rather 706 frequency of presence across the sample instances. This is identical to the way the "TopN" score 707 is calculated for K-mers in PriMux primer design software 37 . Using a K-mer frequency filter 708 selects for a conserved variance signal. This is a reasonable heuristic to introduce, especially for 709 predictive models, where these high-frequency K-mer derived motifs are the those with the 710 presumed highest probability of appearing in a novel example of a related organism in nature. 711
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