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Hi,
I might be using this package wrong, but I thought the default handling used probabilities directly as the heights in the constructed logoplots.
However, when using dataframes that are convert…
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Hi Adnan,
hope you are doing well.
We have dozens if not more classes of anionic gangliosides in ChEBI and Rhea; but these are not currently classified as gangliosides, nor lipids. This issue …
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Convert the `ComplexHeatmap` code to a function in the package. Allow users to select their given assay, and the start and end positions of the protein for plotting.
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On 06/01/2010 14:51, "D'Eustachio, Peter" <Peter.D'Eustachio at nyumc.org> sent this request:
We're in the final stages of converting the way we handle modified-residue instances in Reactome to …
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Hi,
I would like to generate versions of existing proteins with your tool that are lacking one amino acid in their sequence (using alphabet of 19 amino acids). Do you think it is possible when gene…
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Please could the the docs include information on how to interpret the output of site_annotations()? I can't work out what the different levels of codon_nonsyn mean (effect?). I also can't quite work o…
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@goraj raised this at work, that being able to rep non-standard amino acids could be good.
The semantics of how this would work probably needs a bit of definition. For example, we would need to:
…
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Hello, I need the sequence from part of my Blastp hits. The full_sseq option from custom outfmt 6 returns the sequence with variable amino acids.
For example:
MIRSRSRATRGVRMKTFKATMTTAMLALXXXXXXXXXX…
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Thank you for making this amazing resource.
In the imputed files produced from running SNP2HLA, it seem not possible to tell what the alleles are referring to for bialleleic amino acids.
So if y…
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Hi, thanks for releasing Instanovo. I tried denovo predictions on my own data and and received the output csv. It contains only sequence and peptide probability. Could you please let us know, how can …