Description
Convert one image coordinate to a physical coordinate.
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.
Convert one image coordinate to a physical coordinate.
When to use this tool
Use Embryo Image Coordinate Scale when checking a supplied developmental-image coordinate transformation.
How to use the tool and how it works
- Enter pixelCoordinate, pixelOrigin, unitsPerPixel, physicalOrigin. Use the units and conventions below.
- Run the tool. Correct any format, range, or cross-field input error before interpreting the output.
- Read physicalCoordinate. Use the output convention below.
Convert one image coordinate to a physical coordinate. Require unitsPerPixel > 0; physicalCoordinate = physicalOrigin+(pixelCoordinate-pixelOrigin)*unitsPerPixel.1
| Input field | Meaning and units | Accepted input |
|---|---|---|
| pixelCoordinate | Pixel Coordinate | Required. Finite number. |
| pixelOrigin | Pixel Origin | Required. Finite number. |
| unitsPerPixel | Units Per Pixel | Required. Finite number; strictly above 0. |
| physicalOrigin | Physical Origin | Required. Finite number. |
| Output field | Interpretation | Returned shape |
|---|---|---|
| physicalCoordinate | Physical Coordinate | Required. Finite number. |
{
"input": {
"pixelCoordinate": 120,
"pixelOrigin": 20,
"unitsPerPixel": 0.5,
"physicalOrigin": 10
},
"output": {
"physicalCoordinate": 60
}
}Limitations and assumptions
- The scale and origins are supplied; no image features or biological location are detected.
- 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 Zdepth Refractive Factor
Apply a supplied refractive-index depth scaling.
- Embryo Landmark Procrustes One Coordinate Gap
Compare one centered, scaled landmark coordinate.