Re: [Samtools-devel] Indexing a BAM Index (BAI)

[John M. <jm...@sa...>]

On 24 Oct 2014, at 19:54, Dan Vanderkam <da...@gm...> wrote:
> My group's BAI files have gotten quite large (10+MB) and are proving to be a bottleneck when loading interactive visualizations like IGV or BioDalliance. Downloading a 10MB file takes many seconds, during which time the visualization can't display anything.
[...]
> 
> - Does CSI (instead of BAI) help with this?

As Heng just mentioned in passing, CSI is compressed while BAI is not.  For example, for a 42G BAM file I just compared, the CSI index is half the size of the BAM index (4.2M v. 8.4M).

    John

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