chained blastz alignments
Hi:
Is there any one can tell me how to convert the chained blastz alignments format into aligned nucleotides sequence?
(I have already had a similar post in this forum but no replies yet, here I just try to make the problem more clear)
Thanks in advance!
Best
1 answer
Below is a kind message from UCSC staff:
You should take a look at the Axt and MAF formats (http://genome.ucsc.edu/goldenPath/help/axt.html and http://genome.ucsc.edu/FAQ/FAQformat.html#format5) to see if those meet your needs. If so, we have some conversion utilities, chainToAxt and axtToMaf, that will convert your chain files. These utilities can be downloaded from http://hgdownload.cse.ucsc.edu/admin/exe/.
HTH!
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