[Biopython-dev] VCF Parsers

[Brad Chapman]

Nigel and Lenna;
There is also a fully Cython implementation called cyvcf and has the
same interface as PyVCF with some additional speed improvements:

https://github.com/arq5x/cyvcf
https://pypi.python.org/pypi/cyvcf

Brad


> I believe PyVCF [1] has a Cython implementation.
>
> Cheers,
>
> Lenna
>
> 1: https://github.com/jamescasbon/PyVCF
>
>
> On Mon, Sep 9, 2013 at 5:03 PM, Nigel Delaney <nigel.delaney at outlook.com>wrote:
>
>> Hi Biopython,
>>
>>
>>
>> Just wanted to ask quickly if anyone on the biopython team has implemented
>> or is implementing vcf parsers.   I have seen a few python written ones but
>> they seem to be quite slow, and so am curious if anyone has wrapped a C
>> library of some sort.
>>
>>
>>
>> Thanks for any help,
>>
>> Nigel
>>
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