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Node names and descriptions for Bayes classifier. |
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| node |
description |
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| has-function |
true if the protein has the function required to fill the pathway hole, false if it does not |
| Shotgun-score |
the number of query sequences whose BLAST output included the candidate sequence |
| best-E-value |
negative log of the E-value for the best alignment of the candidate with a query sequence |
| average-rank |
the average rank of the candidate sequence in the BLAST output lists (e.g., if a candidate is the best hit in each search, the average rank for the candidate is 1) |
| average-fraction-aligned |
the average of each alignment length normalized by the length of the query sequence |
| pathway-directon |
true if the hit is in the same directon as another gene in the same pathway; a directon is a contiguous series of genes transcribed in the same direction |
| adjacent-rxns |
true if the hit is adjacent to one of the genes coding the enzyme for an adjacent reaction in the pathway |
Green and Karp BMC Bioinformatics 2004 5:76 doi:10.1186/1471-2105-5-76 |
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