Performs isotope impurity correction on the intensities extracted from an isobaric labeling experiment. More...

Static Public Member Functions
static IsobaricQuantifierStatistics	correctIsotopicImpurities (const ConsensusMap &consensus_map_in, ConsensusMap &consensus_map_out, const IsobaricQuantitationMethod *quant_method)
	Apply isotope correction to the given input map and store the corrected values in the output map. More...

Static Private Member Functions
static void	fillInputVector_ (Eigen::VectorXd &b, Matrix< double > &m_b, const ConsensusFeature &cf, const ConsensusMap &cm)
	Fills the input vector for the Eigen/NNLS step given the ConsensusFeature. More...

static void	solveNNLS_ (const Matrix< double > &correction_matrix, const Matrix< double > &m_b, Matrix< double > &m_x)

static void	computeStats_ (const Matrix< double > &m_x, const Eigen::MatrixXd &x, const float cf_intensity, const IsobaricQuantitationMethod *quant_method, IsobaricQuantifierStatistics &stats)

static float	updateOutpuMap_ (const ConsensusMap &consensus_map_in, ConsensusMap &consensus_map_out, Size current_cf, const Matrix< double > &m_x)

Detailed Description

Performs isotope impurity correction on the intensities extracted from an isobaric labeling experiment.

Member Function Documentation

static void computeStats_	(	const Matrix< double > &	m_x,
		const Eigen::MatrixXd &	x,
		const float	cf_intensity,
		const IsobaricQuantitationMethod *	quant_method,
		IsobaricQuantifierStatistics &	stats
	)

staticprivate

static IsobaricQuantifierStatistics correctIsotopicImpurities	(	const ConsensusMap &	consensus_map_in,
		ConsensusMap &	consensus_map_out,
		const IsobaricQuantitationMethod *	quant_method
	)

static

Apply isotope correction to the given input map and store the corrected values in the output map.

Parameters

consensus_map_in	The map containing the values that should be corrected.
consensus_map_out	The map where the corrected values should be stored.
quant_method	IsobaricQuantitationMethod (e.g., iTRAQ 4 plex)

Exceptions

Exception::FailedAPICall	If the least-squares fit fails.
Exception::InvalidParameter	If the given correction matrix is invalid.

static void fillInputVector_	(	Eigen::VectorXd &	b,
		Matrix< double > &	m_b,
		const ConsensusFeature &	cf,
		const ConsensusMap &	cm
	)

staticprivate

Fills the input vector for the Eigen/NNLS step given the ConsensusFeature.

staticprivate

static float updateOutpuMap_	(	const ConsensusMap &	consensus_map_in,
		ConsensusMap &	consensus_map_out,
		Size	current_cf,
		const Matrix< double > &	m_x
	)

staticprivate