Luciphor
Luciphor is a program that performs phospho-site localization on MS/MS data processed by the Trans-Proteomic Pipeline (TPP). It is the first phospho-site prediction program to provide estimates for the false localization rate (FLR).
Luciphor takes in as input PeptideProphet XML files and spectral files (mzXML, mzML). From these it predicts the correct phosopho-peptide permutation for the peptide sequences reported in the XML files.
You can get the latest development code here.
If you are having problems with the software, please submit a post to the support forum or email at: luciphor-support@googlegroups.com
Luciphor is written in C++ and uses the Boost and MS-ToolKit for reading mz*ML files. Instructions for compiling Luciphor locally on your computer are provided here This software is designed to be compiled and executed on Linux. All testing has been performed on RHEL 6.4 (64-bit), GCC compiler version 4.4.7 20120313.
Licence
Copyright 2013 Damian Fermin
Licensed under the Apache License, Version 2.0 (the "License"); you may not
use this file except in compliance with the License. You may obtain a copy
of the License at
http://www.apache.org/licenses/LICENSE-2.0
Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.