Skip to content
EasyPQP: Simple library generation for OpenSWATH
Python Dockerfile
Branch: master
Clone or download
grosenberger Merge pull request #13 from guoci/patch-5
[FEATURE] Support for MSFragger's calibrated MGF
Latest commit 91c97ac Jan 21, 2020
Permalink
Type Name Latest commit message Commit time
Failed to load latest commit information.
.github/workflows Create pythonpublish.yml Dec 11, 2019
easypqp
.gitignore [FEATURE] Ignore .idea Jul 24, 2019
Dockerfile [FEATURE] Dockerfile Apr 12, 2019
LICENSE Initial commit Apr 12, 2019
README.md [FEATURE] Updated Readme May 28, 2019
setup.cfg [FEATURE] Merge Apr 12, 2019
setup.py

README.md

EasyPQP: Simple library generation for OpenSWATH

EasyPQP is a Python package that provides simplified and fast peptide query parameter generation for OpenSWATH. It can process input from MSFragger or other database search engines in pepXML format. Statistical validation can be conducted either using PyProphet or PeptideProphet/iProphet. Retention times are calibrated using an internal or external standard. In addition to a cumulative library, run-specific libraries are generated for non-linear RT alignment in OpenSWATH.

Installation

We strongly advice to install EasyPQP in a Python virtualenv. EasyPQP is compatible with Python 3.

Install the development version of easypqp from GitHub:

    $ pip install git+https://github.com/grosenberger/easypqp.git@master

Running EasyPQP

EasyPQP is not only a Python package, but also a command line tool:

   $ easypqp --help

or:

   $ easypqp convert --help
   $ easypqp library --help

Docker

EasyPQP is also available from Docker (automated builds):

Pull the development version of easypqp from DockerHub (synced with GitHub):

    $ docker pull grosenberger/easypqp:latest
You can’t perform that action at this time.