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More regression models / Sigmoid regression / EC50 #14

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GoogleCodeExporter opened this issue Jun 10, 2015 · 2 comments
Open

More regression models / Sigmoid regression / EC50 #14

GoogleCodeExporter opened this issue Jun 10, 2015 · 2 comments

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@GoogleCodeExporter
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Please describe the purpose and the intended behaviour of the new feature.
Most biological reaction follow a Sigmoidal/LogSigmoidal regression. 
Creating tool to calculate such regression such as EC50, Min, Max etc. 
would be great.

If it has connection to other parts please state it too.
I wanted to devellop such library but I don't know enough about KNIME to 
do it (in addition, I was having problem to get some of the HITS source 
code to use as a base).

For this I wanted to use Michael Thomas Flanagan's Java Scientific Library 
(http://www.ee.ucl.ac.uk/~mflanaga/java/ need to get permission to 
redistribute) which provides the tools to calculate Ec50 etc. An other 
resource that could work is: www.ncgc.nih.gov/pub/openhts/curvefit.

Note that it would be nice to be able to get this EC50 on sets with 
replicates and for multiple features measured.

For instance if you have a table as follow:

CompoundID;[Concentration];Value1;ValueX;etc
A;1;3;5;...
A;1;2;4;...
A;10;15;30;...
A;10;18;27;...
B;...

to obtain an EC50 (or other parameters of the sigmoid) for each of the 
compounds.

I think part of this can be done using KNIME nodes provided with Hits, but 
the Sigmoid or other type of regression and there plotting does not exist. 
Perhaps this could be done?

Original issue reported on code.google.com by [email protected] on 22 Apr 2009 at 12:32

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