Laurent Gatto

icon indicating a website link https://lgatto.github.io/

icon company de Duve Institute, UCLouvain icon location Belgium icon location Open science, reproducible research, bioinformatics, computational biology, proteomics, more omics, emacs, a lot of R, running and parenting.

Results 260 comments of Laurent Gatto

protlocassign

Thank you - I have started the review anyway but didn't mange to finish it yet.

how to get access PDC data by R pachage

I am not aware of any package that allows to directly access data via the PDC portal.

protlocassigndoc

From the link posted above, it look like you need to add it to the `protlocassign` issue by adding a comment containing ``` AdditionalPackage: https://github.com/mooredf22/protlocassigndoc ```

Error using BiocParallel on Travis

Thanks @mtmorgan. I am looking into the ports suggestion, as there's no (large) serialisation. What ports, if any, are used in `MulticoreParams`?

MsQuality

Hi @tnaake - could you please address the issue mentioned in the [build report](http://bioconductor.org/spb_reports/MsQuality_buildreport_20220926104807.html). They should be easy to fix. Just a few quick comments that you can already address...

MsQuality

Following up from your previous replies, yes, I think the update in the vignette where you combine the `Spectra` first is nice and clean. ## General package development - Please...

MsQuality

Great. Thank you for your contribution!

Memory consumption for extremely large search spaces

Will splitting the fasta file not lead to inconsistencies when defining the protein groups? Groups will only be defined within a fasta slice/search, and proteins A from slice 1 and...

R graphics engine version 14 is not supported by this version of RStudio

See also this discussed on the Renkulab forum: https://renku.discourse.group/t/rstudio-version-too-old/393

Amino Acid sequence to letter function

I don't know any such functionality and I have never had a need for it. AA codes and other info is available from `PSMatch::getAminoAcids()`. `PSMatch` is a package that deals...