Dear all, I have a problem with MAF blocks using Galaxy. I am trying to retrieve MAF blocks for a certain number of genomic regions. I uploaded my .bed file containing the genomic regions and then, using the Fetch Alignment tool, I extracted the MAF blocks. Even if I chose the multiz28way alignment in the menu, the number of displayed species is not 28 for each block. Does anyone can tell me why? If I try to compare the multiz obtained with those of the Genome browser, there are some differences. 1) the starting position of the MAF block extracted from Galaxy is shifted of one position downstream; 2) the number of species displayed is not 28 in both Maf (from Galaxy) and Genome Browser. 3) the alignment seems to be different (for example, species that have aligned sequences in the Genome Browser, are not in the MAF block retrieve from Galaxy).
Does anyone can help me? Thank you. Regards Elena Supera i limiti: raddoppia la velocità da 10 a 20 Mega! Risparmia con Tutto Incluso: telefono + adsl 20 mega a soli 29,95 € al mese per due anni! SCONTO DI 240 EURO! http://abbonati.tiscali.it/telefono-adsl/prodotti/tc/tuttoincluso/?WT.mc_id=01fw _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
