pFindStudio/pGlyco3

Non-specific digestion

Closed this issue · 4 comments

lonelu commented
  1. When the file path contains space, such as 'my folder', the program could not work. When the path is changed to 'my_folder', it works.
  2. Not a bug, but the change of enzyme is a pain now (pGlyco2 is nice). For example, I want nonspecfic sesarch and put
    image
    Not sure if it is right...
jalew188 commented

Thank you @lonelu .

Some users had reported bug 1 to me, I will fix it in the next version.

For 2, I have not yet added a non-specific digestion module in pGlyco3. You may do this:

Name: whatever
Digest N-Term:
Digest C-Term: ABCDEFGHIJKLMNOPQRSTUVWXYZ
Max Miss: 25
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adribick commented

@lonelu Did this work for you? I am also interested in non-specific digestion and the solution above gave me; [pGlyco Error] bad allocation

jalew188 commented

@adribick I believe it only works for small fasta files, not proteome-wide fasta

adribick commented

@jalew188 This works. Thank you.

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