Ryosaku Ota

12 Questions 3 Answers 0 Followers

Questions related from Ryosaku Ota

How to create comfa contour map?

Thank you for reading. I'd like to create contour map generated with the CoMFA. If you know how, please tell me the reference paper or books. And is it possible to create it when using other...

01 January 2020 5,831 3 View

What's the constraint condition that oscillation occurs?

I have mathematical problem. I want to know the constraint condition that oscillation occurs (differential equation). For...

05 May 2019 1,411 7 View

How to predict probability of nucleic acid at ambiguous position?

I want to infer the ambiguous nucleic acid of genome. I have these data set below. ambiguous data 1 2 3 4 ・・・・・・100 A AorT A　　 T　・・・・・・T A GorT A　　 G　・・・・・・T ・・・ complete...

04 April 2019 5,993 3 View

How to predict probability of each class by using continuous variables?

I do not know how to do in the below case in Naive Bayes. I want to predict probability of each class by using continuous variables. In my case, class's name are A,B,C,D and prior probability is...

01 January 2019 6,526 3 View

What should I think about the contradiction of my analysis?

I want to know about the Nonlinear Mixed Effect Model. This is my conducted analysis below. 1. Construct base model. 2. Scatterplot between estimated parameters and covariates. 3. Integrate high...

10 October 2018 4,332 3 View

How can I define model in nlme packages?

I read "Longitudinal two-level model" in http://rpsychologist.com/r-guide-longitudinal-lme-lmer. And I'd like to change the Level1 model a little as...

06 June 2018 3,748 1 View

What unit is PQR files's charge?

I do not know units of PQR file's charge. I think it is elementary charge(e= 1.6021766208(98)×10^(−19 )C). So, if 2.00 is written in column of charge, it means its atom has about 3.20 ×10^(−19...

05 May 2018 5,384 0 View

Do you know tha program caluculating the energies of van der waals and electrostatic interaction from PDB(PQR) files??

I read thie article below. :Comparative Molecular Field Analysis (CoMFA). 1. Effect of Shape on Binding of Steroids to Carrier Proteins I have PDB files (also PQR) and I'd like to do CoMFA to PDB...

05 May 2018 4,660 0 View

What should I do in keras package when sample size is smaller than explanatory variables?

I would like to use CNN for regression in keras package (backend theano). I have the training data which has 3-dimension and numbers in each coordinate. And the data also corresponds to certain...

05 May 2018 5,440 2 View

How to change protein structure to constant-size vector?

I have many pdb files (amino sequences are alike). And I would like to use these data for machine learning. In my problem, amino sequences have same length, but the number of atoms is not...

04 April 2018 1,584 3 View

How to use Delaunay triangulation for proteins?

I read the article "Prediction of HIV drug resistance from genotype with encoded three-dimensional protein...

04 April 2018 8,234 1 View

How to calculate quantitative parameters(e.g.IC50) expressing drug resistance of various HIV sequences?

I am looking for the software or API like predicting quantitative parameters(e.g.IC50) expressing drug resistance of various HIV sequences?

12 December 2017 668 2 View