libpappsomspp
Library for mass spectrometry
peptidebuilder.h
Go to the documentation of this file.
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/*******************************************************************************
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* Copyright (c) 2015 Olivier Langella <Olivier.Langella@moulon.inra.fr>.
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*
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* This file is part of the PAPPSOms++ library.
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*
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* PAPPSOms++ is free software: you can redistribute it and/or modify
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* it under the terms of the GNU General Public License as published by
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* the Free Software Foundation, either version 3 of the License, or
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* (at your option) any later version.
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*
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* PAPPSOms++ is distributed in the hope that it will be useful,
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* but WITHOUT ANY WARRANTY; without even the implied warranty of
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* MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
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* GNU General Public License for more details.
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*
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* You should have received a copy of the GNU General Public License
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* along with PAPPSOms++. If not, see <http://www.gnu.org/licenses/>.
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*
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* Contributors:
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* Olivier Langella <Olivier.Langella@moulon.inra.fr> - initial API and
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*implementation
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******************************************************************************/
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#pragma once
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#include "
enzymeproductinterface.h
"
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namespace
pappso
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{
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/** \brief builds a peptide shared pointer from peptide string and adds fixed
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* modifications
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* */
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class
PMSPP_LIB_DECL
PeptideBuilder
:
public
EnzymeProductInterface
,
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PeptideSpSinkInterface
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{
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public
:
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PeptideBuilder
();
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virtual
~
PeptideBuilder
();
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void
setPeptide(std::int8_t sequence_database_id,
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const
ProteinSp
&protein_sp,
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bool
is_decoy,
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const
QString &peptide_str,
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unsigned
int
start,
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bool
is_nter,
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unsigned
int
missed_cleavage_number,
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bool
semi_enzyme)
override
;
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void
addFixedAaModification(
char
aa,
AaModificationP
modification);
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void
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setSink
(
PeptideModificatorInterface
*sink)
override
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{
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m_sink = sink;
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};
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private
:
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PeptideModificatorInterface
*m_sink =
nullptr
;
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std::list<std::pair<char, AaModificationP>>
m_fixedModificationList
;
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};
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}
// namespace pappso
pappso::PeptideBuilder::m_fixedModificationList
std::list< std::pair< char, AaModificationP > > m_fixedModificationList
Definition:
peptidebuilder.h:62
enzymeproductinterface.h
PMSPP_LIB_DECL
#define PMSPP_LIB_DECL
Definition:
exportinmportconfig.h:14
pappso
tries to keep as much as possible monoisotopes, removing any possible C13 peaks and changes multichar...
Definition:
aa.cpp:39
pappso::PeptideSpSinkInterface
Definition:
enzymeproductinterface.h:108
pappso::EnzymeProductInterface
Definition:
enzymeproductinterface.h:34
pappso::PeptideBuilder
builds a peptide shared pointer from peptide string and adds fixed modifications
Definition:
peptidebuilder.h:37
pappso::PeptideModificatorInterface
Definition:
enzymeproductinterface.h:65
pappso::ProteinSp
std::shared_ptr< const Protein > ProteinSp
shared pointer on a Protein object
Definition:
protein.h:43
pappso::PeptideBuilder::setSink
void setSink(PeptideModificatorInterface *sink) override
Definition:
peptidebuilder.h:54
pappso::AaModification
Definition:
aamodification.h:57
pappsomspp
protein
peptidebuilder.h
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