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How to download the RNA stralign datasets and the Achive II datasets from your paper
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**Reported by batchelorc on 2008-02-25 17:56 UTC**
Hello
(This is all a bit telegraphic.)
This is from October but I haven't got around to doing much about it so trackered so it doesn't evaporate ou…
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Hello, I didn't find the visualization code in your repo. Your paper alse didn't mention reference for visualization. Could you tell me how to plot the RNA secondary structure figures.
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This means adding the possibility to load a test file with the structure which is then passed to RAxML using `-S structure_file`
From RAxML's manual:
_Specifying secondary structure models for …
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I will need these soon. I can check the cogent code and add structure classes/functions into skbio. do we want it as a module under `skbio` or something else?
RNAer updated
9 years ago
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Hi,
I'm unable to plot some secondary RNA structures:
For example when I want to visualize these secondary structures:
ss_2='((.....))......((.(((.(((.((((((...)))))))))..)))))......((((((((.((.…
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Awhile ago I made a biopython issue mentioning a small bug I saw in the DNA nearest neighbor values. I caught that because I was using biopython's DNA nearest neighbor energies to bootstrap a library …
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Dear Dr. Oliver,
Thank you for the very nice program. I was wondering:
Assuming we have a predetermined small secondary RNA structure we want to designate as the binding pocket, is there a way t…