Find out some details on how the pairwise comparison of motifs has been created

[Marie-Odile BAUDEMENT]

Hey guys! 

I was wondering how/where to obtain a detailed explanation of what are the different values/metrics calculated for each column shown in the table of pairwise comparisons of motifs? 
After finding a bunch of exact same motifs in 2 different species, I can see that manually I could correct and add up some extra motifs which are not perfectly the same, but closely related. 
I can see some of them, as expected, are related to each other in the cluster tree (like RFX2 and RFX3 for example). 

But if I could use one of the metrics present in the table "pariwise comparison" by knowing what the value is corresponding to, then I could defend clearly the reason why I look at 2 different motifs as being the same one.

Thank you to provide me this information ! 
Have a nice end of day and weekend ! 

- MO -

[Anthony Mathelier]

Dear Marie-Odile.

You can find all the descriptions of the metrics in the Supplementary Notes of the manuscript describing the matrix-clustering tool we are using (https://academic.oup.com/nar/article/45/13/e119/3862068).

We would be happy to meet with you if you need any further help.

Best
AM

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[Marie-Odile BAUDEMENT]

Hi, 

Super, thank you for the link to the publication, I have started to explore it. 

I will contact you later in the week to plan to meet in Oslo if this is indeed a possibility.

My PhD student might need that even more than me, as a part of his project is to discover a new motif, and he encounters still some problems with that, and it will be nice to solve the problems in the next weeks now with some expert advices.

Let's stay in touch, 

MO