Question: Database searchingPKL Micromass File?
0
gravatar for rh5118
18 months ago by
rh511820
London, UK
rh511820 wrote:

Hi BioStars-

Anyone have a good way of doing a database search on a PKL file? I need to search the mass spec data against a supplied proteome. I'd like to use Galaxy but I need to convert PKL to MGF, which I also don't know how to do. Many thanks!

  • A mass spec newbie
ms lc-ms mass spec proteomics • 528 views
ADD COMMENTlink modified 18 months ago by mobiusklein160 • written 18 months ago by rh511820
1
gravatar for mobiusklein
18 months ago by
mobiusklein160
United States
mobiusklein160 wrote:

To convert most mass spectrometry data format into one of the open standard formats or popular plain text formats, you can use msconvert, part of ProteoWizard. Reading vendor binary files requires that you use a Windows machine, but the open XML based formats and those text formats are usable on all platforms the program can build on.

MSGF+ can read from PKL files directly according to the documentation, and it has a few Galaxy wrappers.

ADD COMMENTlink modified 18 months ago • written 18 months ago by mobiusklein160
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 819 users visited in the last hour