Description
Apply a supplied refractive-index depth scaling.
Microscopy coordinates require scale, origin, orientation and often optical correction. A normalized landmark coordinate or refractive-index ratio is one geometric term rather than a complete image registration or validated biological measurement.
Apply a supplied refractive-index depth scaling.
When to use this tool
Use Embryo Image Zdepth Refractive Factor when checking a supplied developmental-image coordinate transformation.
How to use the tool and how it works
- Enter measuredDepth, sampleIndex, immersionIndex. Use the units and conventions below.
- Run the tool. Correct any format, range, or cross-field input error before interpreting the output.
- Read correctedDepth, scaleFactor. Use the output convention below.
Apply a supplied refractive-index depth scaling. Require nonnegative measuredDepth and positive sampleIndex/immersionIndex; scaleFactor = sample/immersion and correctedDepth = measuredDepth*factor.1
| Input field | Meaning and units | Accepted input |
|---|---|---|
| measuredDepth | Measured Depth | Required. Finite number; minimum 0. |
| sampleIndex | Sample Index | Required. Finite number; strictly above 0. |
| immersionIndex | Immersion Index | Required. Finite number; strictly above 0. |
| Output field | Interpretation | Returned shape |
|---|---|---|
| correctedDepth | Corrected Depth | Required. Finite number. |
| scaleFactor | sampleIndex/immersionIndex under this local paraxial scaling model. | Required. Finite number. |
{
"input": {
"measuredDepth": 10,
"sampleIndex": 1.5,
"immersionIndex": 1
},
"output": {
"correctedDepth": 15,
"scaleFactor": 1.5
}
}Limitations and assumptions
- This simple index-ratio approximation does not solve full optical aberration or calibrate microscopy.
- Inputs must satisfy both the field types and the cross-field conditions above. Invalid input causes an error; a successful false flag or documented placeholder is a different result.
- Numeric calculations use binary floating point unless exact decimal-integer arithmetic is explicitly stated. No hidden measurement tolerance or decimal rounding is added; nonfinite or out-of-contract results are rejected. Numeric signed-zero results are exported as zero.
Alternative or Complementary methods
Use calibrated imaging and suitable full shape or optical models when geometry and measurement accuracy matter.
References
Similar or alternative tools
- Embryo Image Coordinate Scale
Convert one image coordinate to a physical coordinate.
- Embryo Landmark Procrustes One Coordinate Gap
Compare one centered, scaled landmark coordinate.