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missuse / ragp

Filter plant hydroxyproline rich glycoproteins
MIT License
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New plotting function #2

Closed TS404 closed 4 years ago

TS404 commented 6 years ago

I've updated plot_domain with GPIanchor potting as yellow circles. image

TS404 commented 6 years ago

plot_domain function now shows Nglc sites and signal peptides. Can't yet seem to add the relevant info to the legend. Will have to remind myself about that part of ggplot2!

image

missuse commented 6 years ago

I have added the scan_nglc function to the package. I prefer scan to predict since no prediction is actually done, but rather the sequences are scanned for a motif. Since the occurrence of this motif was high I've added an (optional) argument (on by default) which checks the local hydrophilicity around the matched motif and if it is above a certain threshold then the found motif is TRUE.

Thank you for the suggestion and initial code.

TS404 commented 6 years ago

Good point. It's far more similar to scan_ag then it is to predict_hyp!

TS404 commented 6 years ago

New basic analysis and plotting function to cluster sequences by their similarity of inter-proline distances image