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Hi,
Would you kindly add the tutorial and examples to this repository? I've tried going to:
- http://www.bioinf.uni-leipzig.de/Software/gADP/tutorial.html
but this appears empty.
I would lik…
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Hello,
I was wondering, is there a way to provide a structure along with the SHAPE reactivities, and predefine a color scheme (so that, for example, reactive bases above a certain value get a certa…
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Hello,
I am hoping you can give some insight into an issue I am experiencing with comradesFold. I will try and give a minimal example. I have run comradesMakeContraints on a sequence that I wish t…
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For Open Targets, RNAcentral could provide bibliography, entry descriptions, cross-references, and, in future, secondary structure visualisations (currently Open Targets only looks for this kind of in…
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Dear @AntonPetrov et al,
I am trying to use R2DT to visualize secondary structures of non-coding internal transcribed spacer 2 (ITS2) sequences in a standard layout for evolutionary/phylogenetic an…
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Hello Developers,
I’m trying to use `mxfold2` to predict for some RNA sequences. However, I encountered a inconsistent result between my local prediction and the web service at `http://www.dna.bi…
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I've noticed some segfaults when running our pipeline which result in errors later when r2dt tries to find an svg that wasn't created.
I'm running a singularity container (converted from the docke…
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Hi, do you remember where there was a great gap between the +bpp and -bpp model according to their training loss?
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@maxieds Although gtfold will build on my office machine it does not run:
```
math11024:bin heitsch$ ./gtmfe test.txt
GTfold: A Scalable Multicore Code for RNA Secondary Structure Prediction
(c) …
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Hi there, can you provide your code for evaluate the performance of pseudo knot prediction?