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Added explained variance

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This commit is contained in:
Arnar Flatberg
2007-08-14 16:12:28 +00:00
parent 004cfe0a9f
commit 8d4848d5fa
2 changed files with 65 additions and 16 deletions
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fluents/lib/blmfuncs.py
+22 -13
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@@ -328,11 +328,11 @@ class PLS(Model):
**options.make_model_options())
# variance captured
var_x, exp_var_x = variances(self.model['E0'], self.model['T'], self.model['P'])
self.model['var_x'] = var_x
self.model['evx'] = var_x
self.model['exp_var_x'] = exp_var_x
var_y, exp_var_y = variances(self.model['F0'], self.model['T'], self.model['Q'])
self.model['var_y'] = var_y
self.model['evy'] = var_y
self.model['exp_var_y'] = exp_var_y
if options['calc_conf']:
@@ -478,6 +478,14 @@ class LPLS(Model):
self._data['Z'] = c.asarray()
self.validation(options)
self.make_model(options)
print self.model['evx']
evx_str = [str(i)[:3] for i in self.model['evx']]
logger.log('notice', 'Explained variance:X\n\t: ' + str(evx_str))
evy_str = [str(i)[:3] for i in self.model['evy']]
logger.log('notice', 'Explained variance:Y\n\t: ' + str(evy_str))
evz_str = [str(i)[:3] for i in self.model['evz']]
logger.log('notice', 'Explained variance:Z\n\t: ' + str(evz_str))
if options['calc_conf']:
self.confidence(options)
@@ -592,7 +600,7 @@ class PlsOptions(Options):
opt['center_mth'] = mat_center
opt['scale'] = 'scores'
opt['calc_conf'] = False
opt['calc_conf'] = True
opt['n_sets'] = 7
opt['strict'] = True
opt['p_center'] = 'med'
@@ -607,7 +615,7 @@ class PlsOptions(Options):
opt['all_data'] = [('T', 'scores', True),
('P', 'loadings', True),
('E','residuals', False),
('p_tsq', 't2', False),
('w_tsq', 't2', True),
('rmsep', 'RMSEP', False)
]
@@ -620,10 +628,10 @@ class PlsOptions(Options):
(blmplots.PlsCorrelationLoadingPlot, 'Corr. loadings', False)
]
opt['out_data'] = ['T','P', 'p_tsq']
opt['out_data'] = ['T','P', 'w_tsq']
opt['out_plots'] = [blmplots.PlsScorePlot,blmplots.PlsLoadingPlot,blmplots.LineViewXc]
opt['out_data'] = None
#opt['out_data'] = None
opt['pack'] = True
opt['calc_qvals'] = False
@@ -664,17 +672,17 @@ class LplsOptions(Options):
opt['engine'] = nipals_lpls
opt['mode'] = 'normal' # how much info to calculate
opt['amax'] = 10
opt['aopt'] = 4
opt['xz_alpha'] = 0.5
opt['aopt'] = 3
opt['xz_alpha'] = 0.4
opt['auto_aopt'] = False
opt['center'] = True
opt['center_mth'] = [2, 2, 1]
opt['scale'] = 'scores'
opt['calc_conf'] = False
opt['calc_conf'] = True
opt['n_sets'] = 75
opt['strict'] = False
opt['p_center'] = 'med'
opt['alpha'] = .2
opt['alpha'] = .3
opt['cov_center'] = 'med'
opt['crot'] = True
@@ -701,13 +709,14 @@ class LplsOptions(Options):
(blmplots.LplsZCorrelationPlot, 'Z corr.', True)
]
opt['out_data'] = ['T','P','L','K']
opt['out_plots'] = [blmplots.PlsScorePlot,
opt['out_data'] = ['T','P','L','K', 'tsqx', 'tsqz']
opt['out_plots'] = [blmplots.LplsScorePlot,
blmplots.LplsXLoadingPlot,
blmplots.LplsZLoadingPlot,
blmplots.LplsXCorrelationPlot,
blmplots.LplsZCorrelationPlot,
blmplots.LineViewXc]
blmplots.LineViewXc,
blmplots.LplsExplainedVariancePlot]
#opt['out_data'] = None