Analysis results - {{ title }}

Image shape: {{ imageAnalyzer._image.shape }}

Pixel size (µm): {{ imageAnalyzer._pixelSize }}

Beads detected: {{ imageAnalyzer._beadAnalyzer|length }}

Beads rejected: {{ imageAnalyzer._beadAnalyzer|selectattr("_rejected")|list|length }}

Signal to Background: {% set sbr_help %} SBR > 10 : the signal is much higher than the background, the image quality is good.
SBR > 5 and < 10 : the signal is higher than the background, the image quality is fair.
SBR < 5 : the signal is not much higher than the background, the image quality may be limited.

{% endset %} {% set sbr = imageAnalyzer._meanSBR if imageAnalyzer._meanSBR else 0 %} {% if sbr > 10 %} {{sbr_help}}Good : Signal to background is high, the analysis is reliable {% elif sbr > 5 %} {{sbr_help}}Warning : Signal to background is moderate, the analysis may have some limitations {% else %} {{sbr_help}}Bad : Signal to background is low, the analysis may be unreliable{% endif %} {{ sbr|round(4) if imageAnalyzer._meanSBR else "N/A" }}

Contrast: {{ imageAnalyzer._meanContrast|round(4) if imageAnalyzer._meanContrast else "N/A" }}

Ellips Ratio: {% set ellipsRatio_help %} EllipsRatio > 0.9 and < 1.1 : Main axis are equivalent, beads are circular.
EllipsRatio > 0.8 and < 1.2 : Main axis are somewhat different, beads are somewhat elongated.
EllipsRatio < 0.8 or > 1.2 : Main axis are very different, beads are very elongated.

{% endset %} {% set er = imageAnalyzer._meanEllipsRatio if imageAnalyzer._meanEllipsRatio else 0 %} {% if er > 0.9 and er < 1.1 %} {{ellipsRatio_help}}Good : Beads main axis are equivalent, beads are circular. {% elif er > 0.8 and er < 1.2 %} {{ellipsRatio_help}}Warning : Beads main axis are somewhat different, beads are somewhat elongated. {% else %} {{ellipsRatio_help}}Bad : Beads main axis are very different, beads are very elongated.{% endif %} {{ er|round(4) if imageAnalyzer._meanEllipsRatio else "N/A" }}

Orientation: {{ imageAnalyzer._meanOrientation|round(2) if imageAnalyzer._meanOrientation else "N/A" }}°

Lateral asymmetry ratio (LAR): {% set lar_help %} LAR > 0.9 : LAR is high, beads are symmetric.
LAR > 0.8 and < 0.9 : LAR is moderate, beads are somewhat elongated.
LAR < 0.8 : LAR is low, beads are very elongated.

{% endset %} {% set lar = imageAnalyzer._meanLAR if imageAnalyzer._meanLAR is not none else 0 %} {% if lar > 0.9 %} {{ lar_help }}Good : LAR is high, beads are symmetric. {% elif lar > 0.8 %} {{ lar_help }}Warning : Beads are somewhat elongated. {% else %} {{ lar_help }}Bad : Beads are very elongated.{% endif %} {{ lar|round(4) if imageAnalyzer._meanLAR is not none else "N/A" }}

Sphericity: {% set sphericity_help %} Sphericity > 0.75 : Sphericity is high, beads are spherical.
Sphericity > 0.65 and < 0.75 : Sphericity is moderate, beads are somewhat elongated.
Sphericity < 0.65 : Sphericity is low, beads are very elongated.

{% endset %} {% set sphericity = imageAnalyzer._meanSphericity if imageAnalyzer._meanSphericity is not none else 0 %} {% if sphericity > 0.75 %} {{ sphericity_help }}Good : Sphericity is high, beads are spherical. {% elif sphericity > 0.65 %} {{ sphericity_help }}Warning : Sphericity is moderate, beads are somewhat elongated. {% else %} {{ sphericity_help }}Bad : Sphericity is low, beads are very elongated.{% endif %} {{ sphericity|round(4) if imageAnalyzer._meanSphericity is not none else "N/A" }}

Comaticity: {% set co_help %} Comaticity < 0.1 : Comaticity is low, beads are not comatic.
Comaticity < 0.2 : Comaticity is moderate, beads are somewhat comatic.
Comaticity >= 0.2 : Comaticity is high, beads are highly comatic.

{% endset %} {% set co = imageAnalyzer._meanComaticity if imageAnalyzer._meanComaticity else 100 %} {% if co < 0.1 %} {{co_help}}Good : Comaticity is low, the image quality is good. {% elif co < 0.2 %} {{co_help}}Warning : Comaticity is moderate, you may check if the objective lens is tipped and translated with respect to the optic axis. {% else %} {{co_help}}Bad : Comaticity is high, you have to check if the objective lens is tipped and translated with respect to the optic axis.{% endif %} {{ imageAnalyzer._meanComaticity|round(4) if imageAnalyzer._meanComaticity else "N/A" }}

Skeleton2Extremities: {% set skeletonToExtremities_help %} Skeleton to extremities ratio > 0.9 and < 1.1 : Skeleton to extremities ratio is high, beads are not comatic.
Skeleton to extremities ratio > 0.8 and < 1.2 : Skeleton to extremities ratio is moderate, beads are somewhat comatic.
Skeleton to extremities ratio < 0.8 or > 1.2 : Skeleton to extremities ratio is far from 1, beads are highly comatic.

{% endset %} {% set s2e = imageAnalyzer._meanSkeleton2Extremities if imageAnalyzer._meanSkeleton2Extremities else 100 %} {% if s2e > 0.9 and s2e < 1.1 %} {{s2e_help}}Good : Skeleton to extremities ratio is close to 1, the image quality is good. {% elif s2e > 0.8 and s2e < 1.2 %} {{s2e_help}}Warning : Skeleton to extremities ratio is moderate, you may check if the objective lens is tipped and translated with respect to the optic axis. {% else %} {{s2e_help}}Bad : Skeleton to extremities ratio is far from 1, you have to check if the objective lens is tipped and translated with respect to the optic axis.{% endif %} {{ imageAnalyzer._meanSkeleton2Extremities|round(4) if imageAnalyzer._meanSkeleton2Extremities else "N/A" }}

Concavity: {% set concavity_help %} Concavity < 0.15 : Concavity is low, beads are not comatic.
Concavity < 0.25 : Concavity is moderate, beads are somewhat comatic.
Concavity >= 0.25 : Concavity is high, beads are highly comatic.

{% endset %} {% set concavity = imageAnalyzer._meanConcavity if imageAnalyzer._meanConcavity else 0 %} {% if concavity < 0.15 %} {{concavity_help}}Good : Concavity is low, the image quality is good. {% elif concavity < 0.25 %} {{concavity_help}}Warning : Concavity is moderate, you may check if the objective lens is tipped and translated with respect to the optic axis. {% else %} {{concavity_help}}Bad : Concavity is high, you have to check if the objective lens is tipped and translated with respect to the optic axis.{% endif %} {{ concavity|round(4) if imageAnalyzer._meanConcavity else "N/A" }}

Minimum curvature radius centroids path: {% set minCurvatureRadiusCentroidsPath_help %} Minimum curvature radius > 5.0 : Minimum curvature radius is high, beads are not comatic.
Minimum curvature radius > 1.0 and < 5.0 : Minimum curvature radius is moderate, beads are somewhat comatic.
Minimum curvature radius < 1.0 : Minimum curvature radius is low, beads are highly comatic.

{% endset %} {% set rmin = imageAnalyzer._meanRMin if imageAnalyzer._meanRMin else 100 %} {% if rmin < 0.1 %} {{minCurvatureRadiusCentroidsPath_help}}Good : RMin is high, the image quality is good. {% elif rmin < 0.2 %} {{minCurvatureRadiusCentroidsPath_help}}Warning : RMin is moderate, you may check if the objective lens is tipped and translated with respect to the optic axis. {% else %} {{minCurvatureRadiusCentroidsPath_help}}Bad : RMin is low, you have to check if the objective lens is tipped and translated with respect to the optic axis.{% endif %} {{ imageAnalyzer._meanRMin|round(4) if imageAnalyzer._meanRMin else "N/A" }}

Astigmatism: {% set ast_help %} Astigmatism < 0.1 and > -0.1 : Astigmatism is low, beads are not astigmatic.
Astigmatism < 0.2 and > -0.2 : Astigmatism is moderate, beads are somewhat astigmatic.
Astigmatism >= 0.2 or <= -0.2 : Astigmatism is high, beads are highly astigmatic.

{% endset %} {% set ast = imageAnalyzer._meanAstigmatism if imageAnalyzer._meanAstigmatism else 100 %} {% if ast < 0.1 and ast > -0.1 %} {{ast_help}}Good : Astigmatism is low, the image quality is good. {% elif ast < 0.2 and ast > -0.2 %} {{ast_help}}Warning : Astigmatism is moderate, you may check if the focus is properly adjusted and the objective lens quality. {% else %} {{ast_help}}Bad : Astigmatism is high, you have to check if the focus is properly adjusted and the objective lens quality.{% endif %} {{ imageAnalyzer._meanAstigmatism|round(4) if imageAnalyzer._meanAstigmatism else "N/A" }}

Spherical Aberration: {% set sa_help %} Spherical aberration < 0.05 : Spherical aberration is low, beads are not spherical.
Spherical aberration < 0.1 : Spherical aberration is moderate, beads are somewhat spherical.
Spherical aberration >= 0.2 : Spherical aberration is high, beads are highly spherical.

{% endset %} {% set sa = imageAnalyzer._meanSphericalAberration if imageAnalyzer._meanSphericalAberration else 100 %} {% if sa < 0.05 %} {{sa_help}}Good : Spherical aberration is low, the image quality is good. {% elif sa < 0.1 %} {{sa_help}}Warning : Spherical aberration is moderate, you may check if the sample is properly mounted and the coverslip thickness is correct. {% else %} {{sa_help}}Bad : Spherical aberration is high, you have to check if the sample is properly mounted and the coverslip thickness is correct.{% endif %} {{ imageAnalyzer._meanSphericalAberration|round(4) if imageAnalyzer._meanSphericalAberration else "N/A" }}