-
-
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 …
-
Hi,
AptaSuite asks for using CapR for secondary structures prediction but this program calculates RNA folding. Do you have any suggestions how to involve DNA secondary structure prediction in AptaSu…
-
- 3 virus grps
1. reference
2. redefining invertebrate rna virome data? Zika?
3. segmented, assembled (FMTV)
Zika (including raw), FMTV, study Holmes, Flaviref, Flavi all (deduplicate)
- q:…
-
Work to be done section:
-Multi-sequence compare tools from the broad institute.
IGV: https://software.broadinstitute.org/software/igv/download
Some good command line softwares you will inevit…
-
This could take as input an alignment of functional RNA molecule sequences, and output a matrix of mutual information scores for all pairs of positions in the alignment. That matrix could be plotted a…
-
Project: ENCODE
So - we are working with a new High Throughput Sequencing Assay: icSHAPE, that captures RNA secondary structure.
NTR: "icSHAPE"
Editor preferred term: "icSHAPE"
Alternative…
-
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…
-
@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) …
-
Hi there, can you provide your code for evaluate the performance of pseudo knot prediction?