コード例 #1
0
def test_fdr():
    n = 100
    x = np.linspace(.5 / n, 1. - .5 / n, n)
    x[:10] = .0005
    x = norm.isf(x)
    np.random.shuffle(x)
    assert_almost_equal(fdr_threshold(x, .1), norm.isf(.0005))
    assert fdr_threshold(x, .001) == np.infty
    with pytest.raises(ValueError):
        fdr_threshold(x, -.1)
    with pytest.raises(ValueError):
        fdr_threshold(x, 1.5)
コード例 #2
0
ファイル: test_thresholding.py プロジェクト: rob-luke/nilearn
def test_fdr():
    rng = np.random.RandomState(42)
    n = 100
    x = np.linspace(.5 / n, 1. - .5 / n, n)
    x[:10] = .0005
    x = norm.isf(x)
    rng.shuffle(x)
    assert_almost_equal(fdr_threshold(x, .1), norm.isf(.0005))
    assert fdr_threshold(x, .001) == np.infty
    with pytest.raises(ValueError):
        fdr_threshold(x, -.1)
    with pytest.raises(ValueError):
        fdr_threshold(x, 1.5)
    # addresses #2879
    n = 10
    pvals = np.linspace(1 / n, 1, n)
    pvals[0] = 0.007
    assert np.isfinite(fdr_threshold(norm.isf(pvals), .1))
コード例 #3
0
            z_maps = [
                pjoin(work_dir, acq, 'z_surf',
                      'effects_interest_%s.gii' % hemi) for acq in acqs
            ]

            mean_z = np.mean([
                np.ravel([darrays.data for darrays in load(z_map).darrays])
                for z_map in z_maps
            ], 0)
            n_maps = len(z_maps)
            fixed_effects = mean_z * np.sqrt(n_maps)
            gii = GiftiImage(
                darrays=[GiftiDataArray().from_array(fixed_effects, 't test')])
            gii.to_filename(pjoin(write_dir, 'retinotopicity_%s.gii' % hemi))
            fixed_effects[np.isnan(fixed_effects)] = 0
            bh = fdr_threshold(fixed_effects, alpha)
            print(bh)
            mask = fixed_effects > bh

            # todo: plot on a surface
            """
            output_file = pjoin(write_dir, 'retinotopicity_%s.png' % hemi)
            if hemi == 'lh':
                plot_surf_stat_map(
                    lh_inflated, fixed_effects, bg_map=sulc_left, output_file=output_file,
                    hemi='left', view='medial', bg_on_data=True, darkness=1, alpha=1,
                    threshold=THRESHOLD)
            else:
                plot_surf_stat_map(
                    rh_inflated, fixed_effects, bg_map=sulc_right, output_file=output_file,
                    hemi='right', view='medial', bg_on_data=True, darkness=1, alpha=1,