Thank you, Jen. Best wishes,
Chuangye 2010/7/20 Jennifer Jackson <[email protected]> > Hi Chuangye, > > A review of past parameters used for Blastz & Lastz can be found in the > makedocs. These are histories of what has been done to generate data tracks > for each assembly. Location is the kent source tree, but also online at: > http://hgwdev.cse.ucsc.edu/~kent/src/unzipped/hg/makeDb/doc/<http://hgwdev.cse.ucsc.edu/%7Ekent/src/unzipped/hg/makeDb/doc/> > > For example, in hg19.txt, searching with "lastz", has several references > for chains/nets. Some of these sections point to other programs in the kent > source tree (that have the run parameters), others have the parameters > recorded. > > Kent source: > http://hgdownload.cse.ucsc.edu/downloads.html > -> scroll to the second section titled "Source Downloads" > > Comparing these parameters with the track/dataset they produced in the > native track set will likely help you to narrow down the desired usage > statement and also help with post-processing/filter steps. > > I hope this information is helpful. Please feel free to contact the > help mailing list again if you require further assistance. > > Best regards, > > Jen > UCSC Genome Browser Support > > > On 7/19/10 7:56 AM, Chuangye wrote: > >> Dear Sir, >> >> I want to use blastz to produce segmental duplication fragments of gorilla >> genome. Could some give me some suggestion on how to set the parameters? >> Or >> could you give me the examples to use it to produce segmental duplications >> ? >> >> Thank you in advance. >> >> >> Chuangye >> >> 2010-07-19 >> _______________________________________________ >> Genome maillist - [email protected] >> https://lists.soe.ucsc.edu/mailman/listinfo/genome >> > _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
