Error in last step - Githubissues

jasminezhoulab / TopDom

TopDom is a software tool to ideintify Topological Domains, which are basic builiding blocks of genome structrue. TopDom is computationally very efficient. Using detecting optimal polygon algorithm, TopDom detect topological domains in a linear time. As well as, this tool requires only a single parameter, which enable user to use easily.

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Error in last step #1

Closed KunFang93 closed 4 years ago

KunFang93 commented 4 years ago

Hi, Prof. Zhou

I have run topdom smoothly until the last step and have this error message: ...... [1] "-- Done!" [1] "-- Filtering False Positives" [1] "-- Done!" [1] "Step 3 Running Time : 5.09800000000018" [1] "Step 3 : Done!" Error in ret[i, "from.id"]:ret[i, "to.id"] : NA/NaN argument

I was wondering what might cause this problem and how could I solve it? Is this error result from no tads detected? Thanks a lot!

Kun

KunFang93 commented 4 years ago

make coordinate start from 0 solve my problem.

alkurowska commented 2 years ago

It doesnt solve the problem in my case, when I make coordinate start from 0

hanshanmengqi commented 7 months ago

Hi @KunFang93 ,

Thanks for your informations. Could you please tell me how to convert sparse matrix to the input matrix? As shown below:

Best, Han