[Biojava-l] PROFEAT: Solvent accessibility

[Spencer Bliven]

That output looks quite different from that described in the Reference
Manual <http://bidd.cz3.nus.edu.sg/prof/manual/prof.htm>. Maybe there's a
parameter in the API to output GIST or CSV files?


On Tue, Jul 23, 2013 at 12:17 PM, Khalil El Mazouari <
khalil.elmazouari at gmail.com> wrote:

> Hi,
>
> I am trying to use the PROFEAT APIs for solvent accessibility calculation.
>
> I can't understand the output. And the PROFEAT publication is not clear in
> this regards.
>
> Any help on how to interpret these results is very welcome ;)
>
> Thanks
>
> khalil
>
>
>
> =======SOLVENTACCESSIBILITY=======
> GROUP1 = 0.37142857142857144
> GROUP2 = 0.3142857142857143
> GROUP3 = 0.3142857142857143
>
>
> =======SOLVENTACCESSIBILITY=======
> 1<=>1 = 0.11594202898550725
> 2<=>2 = 0.08695652173913043
> 3<=>3 = 0.08695652173913043
> 1<=>2 = 0.2463768115942029
> 1<=>3 = 0.2753623188405797
> 2<=>3 = 0.18840579710144928
>
>
> =======SOLVENTACCESSIBILITY=======
> GROUP1 = {FIRST50=0.38571428571428573, FIRST25=0.24285714285714285,
> ALL=0.9857142857142858, FIRST=0.02857142857142857,
> FIRST75=0.6428571428571429}
> GROUP2 = {FIRST50=0.5285714285714286, FIRST25=0.2, ALL=1.0,
> FIRST=0.014285714285714285, FIRST75=0.7}
> GROUP3 = {FIRST50=0.5857142857142857, FIRST25=0.21428571428571427,
> ALL=0.9714285714285714, FIRST=0.11428571428571428,
> FIRST75=0.7428571428571429}
>
>
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