[Biopython] Cross_match

[Peter]

On Mon, May 31, 2010 at 10:05 PM, Chris Fields  wrote:
>
> On May 31, 2010, at 3:54 PM, Peter wrote:
>
>> On Mon, May 31, 2010 at 9:48 PM, Alvaro F Pena Perea wrote:
>>> Hi all,
>>> I'm working on small RNA sequences from NGS. In this regard, I
>>> made an alignment between the sequences and the genome with
>>> cross match with the tags option. I wonder if there is some method
>>> in bioperl to parse cross_match alignments.
>>
>> I think BioPerl's SearchIO supports cross_match, but Biopython
>> doesn't (yet).
>>
>> Peter
>
> Yes, BioPerl does.
>
> perldoc Bio::SearchIO::cross_match
>
> chris
>

I thought it was actually a Biopython/BioPerl typo in the first place,
but since we are talking about it, I guess there are some example
files in the BioPerl unit tests we could usefully borrow...

Peter