Dear UCSCers, I'm interested in comparing the performance of various multiple genome alignment methods in a yeast 7-way genome alignment. This whole-genome alignment is precomputed and available in UCSC web http://hgdownload.cse.ucsc.edu/goldenPath/sacCer2/multiz7way/
As far as I know, this alignment was created with the Penn State multiz alignment tool applied to pairwise alignments which are produced by a pipeline consisting of the Penn State blastz aligner, followed by the UCSC chain/net process. I would like to know if blastz pairwise local alignments used as input for the 7-way alignment are available somewhere through the UCSC web. Could you provide me the BLASTZ parameters you used for the alignments, as well as the BLASTZ version? (BLASTZ was replaced by LASTZ, I don't know up to which point the results for each method are similar) Thanks in advance, Meri -- Meritxell Oliva PhD Student Comparative Bioinformatics Group Bioinformatics and Genomics Programme Centre de Regulacio Genomica (CRG) Dr. Aiguader, 88 08003 Barcelona Spain email: [email protected] _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
