Re: [Gmod-ajax] Max height reached with BAM files

[Colin <col...@gm...>]

There is a maxHeight configuration variable that you can change to a high
number

-Colin

On Tue, Sep 10, 2019 at 8:34 AM Michał T. Lorenc <m.t...@gm...>
wrote:

> Hi all,
> After HiSAT2 I ran MarkDuplicates and removed aligned reads with lower
> than 40 quaily score but still, I get Max height reached.
>
> [image: Screen Shot 2019-09-11 at 12.23.00 AM.png]
>
> Is there a way to change the aligned reads so there do not trigger  Max
> height reached and covering the whole gene region?
>
> Thank you in advance
>
> Michal
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