Additional file 14.

Figure S10 Gene model improvement procedure for the reparation of genes. If the prediction hits a gene, then different procedures are defined depending on the gene been an in-map or out-map gene. If the gene hit is an in-map gene, then we measure the genomic coverage of the in-map gene. If the coverage is greater or equal than the threshold defined, then the prediction is discarded. If the coverage is less than the threshold, then the peptide of the ortholog of g1', g1, is used as query against the genomic span if g1'. If the predictions overlap, then they are discarded. If the predictions do not overlap and g1' is in C. briggsae, then g1' is replaced by o1' and g1''. If g1' is in C. elegans, then its peptide is used as query against the genomic span of g1 - o1 in C. briggsae to determine if those genes can be merged (g1'''). If the prediction hits an out-map gene and the coverage is less than the original gene model, then the prediction is discarded. If the coverage is greater or equal than the original gene model, then o1' is discarded if p1 is located in C. elegans. If p1 is located in C. briggsae, the prediction o1' replaces p1.

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Vergara and Chen BMC Genomics 2010 11:516   doi:10.1186/1471-2164-11-516