_PSIInternalPssmData Struct Reference

Search Toolkit Book for _PSIInternalPssmData

#include <blast_psi_priv.h>

List of all members.

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Detailed Description

Internal representation of a PSSM in various stages of its creation and its dimensions.

Definition at line 246 of file blast_psi_priv.h.

Public Attributes
Uint4	ncols
	number of columns (query_length)
Uint4	nrows
	number of rows (alphabet_size)
int **	pssm
	PSSM (scores).
int **	scaled_pssm
	scaled PSSM (scores)
double **	freq_ratios
	frequency ratios

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Member Data Documentation

double** _PSIInternalPssmData::freq_ratios

frequency ratios Definition at line 251 of file blast_psi_priv.h. Referenced by _IMPALAScaleMatrix(), _PSIConvertFreqRatiosToPSSM(), _PSIInternalPssmDataFree(), _PSIInternalPssmDataNew(), _PSISaveDiagnostics(), PSICreatePssmFromFrequencyRatios(), and s_ScalePosMatrix().

Uint4 _PSIInternalPssmData::ncols

number of columns (query_length) Definition at line 247 of file blast_psi_priv.h. Referenced by _IMPALAScaleMatrix(), _PSIConvertFreqRatiosToPSSM(), _PSIInternalPssmDataFree(), _PSIInternalPssmDataNew(), _PSIScaleMatrix(), PSICreatePssmFromFrequencyRatios(), and s_ScalePosMatrix().

Uint4 _PSIInternalPssmData::nrows

number of rows (alphabet_size) Definition at line 248 of file blast_psi_priv.h. Referenced by _IMPALAScaleMatrix(), _PSIInternalPssmDataNew(), _PSIScaleMatrix(), PSICreatePssmFromFrequencyRatios(), and s_ScalePosMatrix().

int** _PSIInternalPssmData::pssm

PSSM (scores). Definition at line 249 of file blast_psi_priv.h. Referenced by _IMPALAScaleMatrix(), _PSIInternalPssmDataFree(), _PSIInternalPssmDataNew(), _PSIScaleMatrix(), s_PSISavePssm(), and s_ScalePosMatrix().

int** _PSIInternalPssmData::scaled_pssm

scaled PSSM (scores) Definition at line 250 of file blast_psi_priv.h. Referenced by _IMPALAScaleMatrix(), _PSIInternalPssmDataFree(), _PSIInternalPssmDataNew(), _PSIScaleMatrix(), and s_ScalePosMatrix().

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The documentation for this struct was generated from the following file:

• src/algo/blast/core/blast_psi_priv.h

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