Dear all, Can we use mafToAxt on maf file aligned on genome downloaded from ENSEMBL?
Example below is the alignment of D. Melanogaster versus A. Aegypti downloaded from: http://www.ensembl.org/info/data/ftp/index.html a score=50 s 3L 12244269 106 + 31566707 ATGATCGATAAAAAT [cut here] s supercont1.1440 2899257 111 - 49087461 ATAATGTATATAAAT [cut here] ..etc... a score=51 s X 29357053 58 + 31566707 TTTGCAAAAAAAAAAAAAAAa [cut here] s supercont1.1292 44393263 59 - 49087461 TTTGCAAAAAAAAAAAAAAAAT [cut here] ..etc... In particular I have problem passing the "tname" an "qName" parameter. $ mafToAxt mafToAxt - Convert from maf to axt format usage: mafToAxt in.maf tName qName output - Gundala Viswanath Jakarta - Indonesia _______________________________________________ Genome maillist - [email protected] http://www.soe.ucsc.edu/mailman/listinfo/genome
