Selected article for: "abundance log and log abundance"
Author: Nasir, Arshan; Caetano-Anollés, Gustavo
Title: A phylogenomic data-driven exploration of viral origins and evolution
  • Document date: 2015_9_25
    • ID: 49360l2a_70
    Snippet: Phylogenomic analysis was carried out as previously described (12, 120) . Specifically, we calculated the abundance (that is, the total count) of each FSF in every proteome. Raw abundance values were logtransformed and rescaled to ensure compatibility with PAUP* (version 4.0b10) (121) . For example, the raw abundance value of FSF a in proteome b was log-transformed (g ab ) and divided by the maximum abundance value in that proteome (g ab_max ). T.....
    Document: Phylogenomic analysis was carried out as previously described (12, 120) . Specifically, we calculated the abundance (that is, the total count) of each FSF in every proteome. Raw abundance values were logtransformed and rescaled to ensure compatibility with PAUP* (version 4.0b10) (121) . For example, the raw abundance value of FSF a in proteome b was log-transformed (g ab ) and divided by the maximum abundance value in that proteome (g ab_max ). This was done for each FSF in every proteome. The transformed matrix was then rescaled from 0 to 23 to yield 24 possible character states for use in PAUP* g ab normal ¼ round½lnðg ab þ 1Þ=lnðg ab max þ 1Þ Â 23:

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