Re: [Biopython] pd.df.to_csv(..., compression="bgzip")?

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Hi Dan,

This feels more like a panda's issue than a biopython issue. That said, I
think you could just use gzip. I think. bgzip for samtools was built on top
of gzip so it probably decompresses in a similar way.

On Tue, Mar 12, 2024 at 12:52=E2=80=AFPM Dan Bolser <[email protected]=
k> wrote:

> Hi,
>
> I can pass `compression=3D"gzip"` to pandas.DataFrame.to_csv, but not
> bgzip... how to update pandas to support bgzip?
>
>
> Thanks,
> _______________________________________________
> Biopython mailing list  -  [email protected]
> https://mailman.open-bio.org/mailman/listinfo/biopython
>

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<div dir=3D"ltr"><div>Hi Dan, <br></div><div><br></div><div>This feels more=
 like a panda&#39;s issue than a biopython issue. That said, I think you co=
uld just use gzip. I think. bgzip for samtools was built on top of gzip so =
it probably decompresses in a similar way. <br></div></div><br><div class=
=3D"gmail_quote"><div dir=3D"ltr" class=3D"gmail_attr">On Tue, Mar 12, 2024=
 at 12:52=E2=80=AFPM Dan Bolser &lt;<a href=3D"mailto:[email protected].=
uk">[email protected]</a>&gt; wrote:<br></div><blockquote class=3D"gm=
ail_quote" style=3D"margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,=
204,204);padding-left:1ex"><div dir=3D"ltr">Hi,<div><br></div><div>I can pa=
ss `compression=3D&quot;gzip&quot;` to pandas.DataFrame.to_csv, but not bgz=
ip... how to update pandas to support bgzip?</div><div><br></div><div><br><=
/div><div>Thanks,</div></div>
_______________________________________________<br>
Biopython mailing list=C2=A0 -=C2=A0 <a href=3D"mailto:Biopython@biopython.=
org" target=3D"_blank">[email protected]</a><br>
<a href=3D"https://mailman.open-bio.org/mailman/listinfo/biopython" rel=3D"=
noreferrer" target=3D"_blank">https://mailman.open-bio.org/mailman/listinfo=
/biopython</a><br>
</blockquote></div>

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