How to import data from MAIRplot to workspace using code?

I'm using the MAIRplot in Matlab to differentiate between up-regulated and down-regulated genes. I can export these populations manually using the Export button. I want to run it for multiple data files and store the list in the workspace using code. Any suggestion?

[Mohammad Naser]

Thanks @Kausthub yes, that's exactly what I was looking for. And thanks for the additional code.

Answer 1

[Kausthub]

Hi Mohammad Naser,

I understand that you are looking for a way to store the up-regulated and down-regulated genes in the workspace using code rather than using the “Export” button since you are dealing with multiple data files.

A possible solution to the issue you are facing would be to utilize the outputs of the mairplot() function.

[Intensity, Ratio, H] = mairplot(DataX, DataY)

mairplot() has Ratio as one of the return values from which we can calculate the up-regulated and down regulated genes. Up-regulated genes have ratio greater than threshold and down-regulated genes has ratio lesser than negative of the threshold.

% Calculate threshold from Fold Change
threshold = log2(FoldChange);  % threshold = 1; when foldChange = 2

% Find the respective indices  
upIdx = ratio > threshold; %  upIdx = ratio > 1; when foldChange = 2
downIdx = ratio < -threshold;  %  downIdx = ratio < -1;   when foldChange = 2
diffIdx = upIdx | downIdx;

upIndices = find(upIdx);
downIndices = find(downIdx);
diffIndices = find(diffIdx);


% Find the respective labels
upLabels = maStruct.Names(upIdx);
downLabels = maStruct.Names(downIdx);
diffLabels = maStruct.Names(diffIdx);

Please refer to the following MATLAB documentation to know more about “mairplot” function

• Create intensity versus ratio scatter plot of microarray data - MATLAB mairplot - MathWorks India

I hope this helps!