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petitmingchang / TO-GCN

Pipeline of time-ordered gene coexpression network (TO-GCN) construction from three-dimensional (gene expression, condition, and time) data
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more than 2 conditions? #1

Closed ckastall closed 5 years ago

ckastall commented 5 years ago

Would it be possible to compare more than 2 conditions using this pipeline?

petitmingchang commented 5 years ago

This method can be applied to more than two conditions for sure. However, we only implement 2 conditions in this version. I will try to compare more conditions in the next update. Thanks for your comment!

ckastall commented 5 years ago

Thank you for your answer.

In my case I have 2 conditions (in addition to time), with two possible states for each. Would it be possible to still use the present version by running the pipeline for each comparison pair (ie 4 comparisons)? Would you have specific suggestions for such an approach?

petitmingchang commented 5 years ago

Ha! It is not an easy mission to do four comparisons using this version. I think you can use GCN to do six time pair-wise comparisons for four conditions or states. Then collect them and pick out the combinations of gene coexpression relationships you want by yourself.

ckastall commented 5 years ago

Thank you for the feedback! I'll try to make some tests and come back to you if I have further questions, I guess I can close this now.