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Hi, is it possible for RNA reads simulation to include parameters defining distribution of poly(A) lengths? (For simplicity it can be just mean+sd). Thanks!
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I just found out one of my wildcard certs had not renewed and is now expired. Luckily, this i on a backup server and the main one will still be valid for a month. I am running (worked fine until I no…
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_From @ValWood on June 15, 2018 17:34_
Having almost sorted out redundancy in proteins, we now have multiple copies of the same RNA from RNA central (at least 5 copies of telomerase RNA here)
Wh…
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Hi,
Thanks for the useful tool.
I am currently uncertain about the optimal type of transcriptome files to provide for my study. I am considering two approaches: directly using StringTie/Trinity fo…
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**Is your feature request related to a problem? Please describe.**
Not all permutations are currently considered when registering a sample batch in case of multiple analytes present.
**Describe th…
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We know we are moving forward with RNA-seq, and I think it would be beneficial to rank priorities on other analyses:
Here is a non exhaustive ranked list to start with but would like to get more op…
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I had multiple seurat objects and I wrote each to disk then merged them. How to save this object ? Do I just saveRDS()? or do I write it into a matrix first?
write_matrix_dir(mat = object1[["RNA"]]…
Flu09 updated
3 weeks ago
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Hi TREASMO team,
paper looked really cool! So I wanted to try and run on some of my own data and the code provided:
rna = ad.read_h5ad('data/HSPC_Muon_RNA.h5ad')
atac = ad.read_h5ad('data/HSPC_Muon…
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This issue covers 3 different types of CRISPR screens.
Related publications:
* https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8443183/
* https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5181115/
* htt…
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Here is the run I am trying to replicate. Below, are the inputs: the two sample sequences, and using DNA parameters.
![image](https://github.com/ViennaRNA/ViennaRNA/assets/124276755/d49417a6-734c-4…