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Re: Frequency of amino acids from 'ATOM ' of PDB

by BrowserUk (Pope)
on Aug 10, 2012 at 09:24 UTC ( #986703=note: print w/replies, xml ) Need Help??


in reply to Frequency of amino acids from 'ATOM ' of PDB

I tried to write the program but due to partial occupancies some residues are repeating which made me so confused.

You couldn't write the program because the data confused you. Did you get confused after writing the first line of your program? Or the second?

I can use Bioperl or some modules.But for my project I need to write a fresh program to parse the information.

How do you judge the "freshness"? Smell, taste, touch?

The program I wrote for another guy last week to do pretty much the same thing wouldn't be any good to you? It would be stale?


With the rise and rise of 'Social' network sites: 'Computers are making people easier to use everyday'
Examine what is said, not who speaks -- Silence betokens consent -- Love the truth but pardon error.
"Science is about questioning the status quo. Questioning authority".
In the absence of evidence, opinion is indistinguishable from prejudice.

The start of some sanity?

  • Comment on Re: Frequency of amino acids from 'ATOM ' of PDB

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[TCLion]: at least that's the plan
[1nickt]: Corion this looks good, from the pod: "there are 9000+ variations that are detected correctly in the test files (see t/data/* for most of them). If you can think of any that I do not cover, please let me know."
[TCLion]: some moron put the date like this : Mon Feb 20 09:31:30 2017
[Corion]: 1nickt: Yes, the module sounds promising indeed
[1nickt]: "putting the date in correct order" how?
[Corion]: TCLion: Whee ;)
[TCLion]: need to put like this : 2017-02-20 09:30:53
[1nickt]: That's why I asked if you are using DateTime. It has a large number of supporting modules (the author likes the term 'eco-system') so if you are already creating a DateTime obj from your dates, this module would read in the mnoron-formatted 1s seamlessly
[TCLion]: when I put the date together it looks like : 2017-Feb-24 (month is the problem)
[1nickt]: good luck, then.

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