:) Thanks, I was just hoping someone had already done it, and was
serving the data for Pygr via XMLRPC, so I could steal it!
\begin{whine}
Sure wish UCSC would just have the data already...if they have an
alignment and all datasets for in fasta format (multiz17way), why not
these?
\end{whine}
Kenny
On May 24, 3:27 pm, Namshin Kim <deepr...@gmail.com> wrote:
> Hi Kenny,
> Do you want to know how to make fasta from 2bit format? Or...?
>
> FYI. How to get fasta from 2bit format.
> 1. Get blat suite fromhttp://hgwdev.cse.ucsc.edu/~kent/src/blatSrc34.zip
> 2. Compile it. (create ~/bin, ~/bin/x86_64, switch to csh, then make)
> 3. twoBitToFa
> [deepr...@s48 ~]$ twoBitToFa
> twoBitToFa - Convert all or part of .2bit file to fasta
> usage:
> twoBitToFa input.2bit output.fa
> 4. download all 2bit files and convert
> themftp://hgdownload.cse.ucsc.edu/gbdb<ftp://hgdownload.cse.ucsc.edu/gbdb/gorGor1/>
> /
>
> Yours,
> Namshin Kim
>
> On Mon, May 25, 2009 at 4:50 AM, Kenny Daily <kmda...@gmail.com> wrote:
>
> > Has anyone successfully downloaded/built all the genomes for the 44-
> > way human alignment? Namshin, I saw a post to UCSC about the
> > availability of the genomes, as some are only in 2bit format. Have you
> > (or anyone else) gotten all of them, and willing to share your data?
> > If not, let me know and I'll get them all. Thanks!
>
> > Kenny
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