Hello Jennifer The output information is from output file with name like "scaffold_NNNN", but I am looking for chrNN. Would you please help me on this issue? Thank you.
Best regards, Hung Nguyen On Mon, 12 Jul 2010 12:17:46 -0700 Jennifer Jackson <[email protected]> wrote: Hello Hung, I just tested the file on the hgdownload server and was able to get the expected results with the utility. Were you able to get any output or was the file empty? Is there perhaps a nomenclature misunderstanding? The database xenTro2 reference genome contains sequences with a name like "scaffold_NNNN". There are no sequences with a name like "chrNN". The gateway page in the Genome browser has details about the reference genome - source, sequences, sizes, etc. that can help explain/confirm the expected output that twoBitInfo would give for a database assembly. Please let us know if this information does not clear up the problems you are having with the utility, Jen UCSC Genome Browser Support On 7/12/10 11:58 AM, Hung Nguyen wrote: > Hello Jennifer > > I downloaded xenTro2.2bit file and ran a command >"twoBitInfo" with > arguments are xenTro2.2bit and xenTro2.tab. After >twoBitInfo is > completed, xenTro2.tab is contained no chr. information. >Would you > please show me how to obtain this information? Thank you >very much. > > > Best regards, > > Hung Nguyen > > On Mon, 12 Jul 2010 11:40:35 -0700 > Jennifer Jackson <[email protected]> wrote: > Hello, > > The file is on the Downloads server at: > > ftp://hgdownload.cse.ucsc.edu/gbdb/xenTro2/ > > Use anonymous ftp as described in the FAQ below. Once > logged in, cd into the gbdb/xenTro2 directory to get the > file. > > http://genome.ucsc.edu/FAQ/FAQdownloads.html#download1 > > Best regards, > Jen > UCSC Genome Browser Support > > > On 7/12/10 11:15 AM, Hung Nguyen wrote: >> Dear UCSC Genomic Staff >> >> Where can I download xenTro2.2bit file? Thank you very >> much. >> >> Best regards, >> >> Hung Nguyen >> The email message (and any attachments) is for the sole >> use of the intended recipient(s) and may contain >> confidential information. Any unauthorized review, use, >> disclosure or distribution is prohibited. If you are not >> the intended recipient, please contact the sender by >>reply >> email and destroy all copies of the original message (and >> any attachments). Thank You. >> >> _______________________________________________ >> Genome maillist - [email protected] >> https://lists.soe.ucsc.edu/mailman/listinfo/genome > The email message (and any attachments) is for the sole >use of the > intended recipient(s) and may contain confidential >information. Any > unauthorized review, use, disclosure or distribution is >prohibited. If > you are not the intended recipient, please contact the >sender by reply > email and destroy all copies of the original message (and >any > attachments). Thank You. > The email message (and any attachments) is for the sole use of the intended recipient(s) and may contain confidential information. Any unauthorized review, use, disclosure or distribution is prohibited. If you are not the intended recipient, please contact the sender by reply email and destroy all copies of the original message (and any attachments). Thank You. _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
