PredictProtein (PHDsec, PHDacc, PHDhtm, PHDtopology, TOPITS, MaxHom)

Burkhard Rost

Keywords for writing automatic parsers for PredictProtein output

Most of the PredictProtein output is designed to be human readable. Consequently, keywords used to automatically parse the output may change. In order to maintain an automatic parser for the PHD predictions, I suggest the following compromise:

Parsing PHD predictions

Parsing alignments

Regular expressions used before sections of output

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