Thanks Tommy for the estimate.
Thomas, you're right--I was inaccurately describing my workflow wishlist. I
am indeed indexing the BAM file before converting to SAM and then sorting
the SAM.
Peter: for experimental purposes.
On Sat, Jan 14, 2017 at 10:50 AM, Peter Cock <p.j.a.c...@googlemail.com>
wrote:
> On Fri, Jan 13, 2017 at 11:16 PM, Irena Fischer-Hwang
> <ihw...@stanford.edu> wrote:
> > Hi, I'm trying to index a huge BAM file (~180 GB) in anticipation of
> > converting it to SAM.
>
> Really?
>
> If you already have a very large BAM file, why would you want
> to turn it into a much much larger SAM file? Any relevant tools
> ought to work directly on the BAM file.
>
> It is very rare that you would ever want a SAM file nowadays.
>
> Peter
>
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