One alternative can be found in my under development (slow, and
probably won't be finished) BioSeq1 package; it can be gotten
painfully via:
http://www.bioconductor.org/develPage/develPackages.html
There are tools for getting BLAST results back and processing them.
best,
-tony
Tom Blackwell <[EMAIL PROTECTED]> writes:
> Matt -
>
> Yes, you would be seriously re-inventing the wheel.
> A standard tool is the bioperl SearchIO package.
> This is described at
>
> www.bioperl.org > Docs > SearchIO HOWTO:
>
> The html version of that link evaluates to:
>
> http://bioperl.org/HOWTOs/html/SearchIO.html
>
> - best - tom blackwell - u michigan medical school - ann arbor -
>
> On Fri, 19 Mar 2004, Matthew Oliver wrote:
>
>> Hi All,
>>
>> I have use the BLAST program provided by NCBI to compare large databases and have
>> generated a lot of output in one long text file. I was looking for a way to parse
>> out the results in a nice way so that it could be easily visualized. I was thinking
>> of trying to write something in R, but I wanted to check in with the help group to
>> make sure I am not re-inventing the wheel. Any help would be great!
>>
>> Matt Oliver
>>
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