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williamslab / ibis

Algorithm for rapid, phase-free detection of long identical by descent segments
GNU General Public License v3.0
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Perform analysis in just one sample in your dataset #10

Closed KnowToLearn closed 6 months ago

KnowToLearn commented 1 year ago

Hello, I am starting some analyses with a huge dataset using IBIS. I was wondering if it possible to carry out the calculation of .seg and .coef for just one sample in my dataset against the resto of the dataset, instead of running the analyses for all the samples vs all the samples together. This would be very helpful if I am interested in just one sample, and avoid post-processing filters in the output tables every time I perform a different analysis.

I really appreciate your help.

williamslab commented 1 year ago

If you can order the PLINK files so that the sample you want to compare against the others is first, you can use -setIndexStart 0 -setIndexEnd 0. That compares the first sample, index 0, against all other samples in the dataset.

KnowToLearn commented 1 year ago

Thank you so much for your quick help. If I set the flag -setIndexEnd 0 I obtain the error "Cannot select starting ending index less than or equal to 0.". I used -setIndexEnd 1 and it worked.