hiclib / pastis

Poisson-based algorithm for stable inference of DNA Structure
http://hiclib.github.io/pastis/
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Question about the output of example data #48

Open QianzhaoJ opened 6 years ago

QianzhaoJ commented 6 years ago

Hi : I have used data in pastis_example, follow steps written in README ,and I get the result PM1.structure.pdb . But I am very confused about this file. It is like this:

ATOM 0 O NOD A 116.351 58.866 117.979 1.00 50.00
ATOM 1 O EDG A 114.175 48.197 119.814 1.00 75.00
ATOM 2 O EDG A 119.426 49.104 110.829 1.00 75.00
ATOM 3 O EDG A 119.209 59.102 105.186 1.00 75.00
ATOM 4 O EDG A 116.281 47.717 102.960 1.00 75.00
ATOM 5 O EDG A 106.110 53.830 94.599 1.00 75.00

I don't know why it only contains 'EDG A' ,I think that it may contains 'EDG A','EDG B' ,'EDG C' and so on ,the number of types should be consistent with the number of chromosomes . I find budding_yeast_structure contain eight chromosomes . It is my config.ini

[all] output_name: structure verbose: 1 max_iter: 100 counts: data/counts.npy normalize: True

and I used pastis-pm1

Thank you! Best wishes

Qianzhao