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. 2005 Dec 28;34(Database issue):D572–D580. doi: 10.1093/nar/gkj118

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© The Author 2006. Published by Oxford University Press. All rights reserved

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Flowcharts of TreeFam pipelines. (A) Overall strategy. The seed families for TreeFam-B are taken from PhIGs clusters. They are expanded by a seed-to-full procedure to form full families. Manual curation makes TreeFam-B families become TreeFam-A families, which can also be curated further at a later date. (B) The seed-to-full procedure. This procedure is used to expand seed families to full families. Note that the complete seed-to-full pipeline is only applied when the sequence sets are updated or a whole new genome is added to TreeFam. That is, for a TreeFam-A family created by curation of a TreeFam-B family, the TreeFam-A seed is generated by manual curation, and the full sequences are taken directly from the TreeFam-B family that was curated. (C) Manual curation. Various published resources and in-house tools are utilized in this process.