Linker DNA Length
Derive linker DNA length from repeat and core-particle lengths.
Description
Linker length is the difference between nucleosome-repeat and core lengths.
Linker length is the difference between nucleosome-repeat and core lengths.1
Derive linker DNA length from repeat and core-particle lengths.
When to use Linker DNA Length
Use this tool to derive linker DNA length from repeat and core-particle lengths.
Prepare the already measured signals, counts, coordinates, fitted coefficients or sequence strings requested. Keep assay definitions, units, aligned lists and caller-selected thresholds consistent.
How to use Linker DNA Length and understand its results
- Prepare the already measured signals, counts, coordinates, fitted coefficients or sequence strings requested. Keep assay definitions, units, aligned lists and caller-selected thresholds consistent.
- Enter nucleosomeRepeatLengthBp, coreParticleLengthBp using the field table and calculation rules, then run the tool.
- Read linkerDnaLengthBp, positiveLinker. The explanation below defines the units, signs, ordering and any flags or placeholder values.
- If the tool reports an input issue, correct the values and run it again. Apply the stated assumptions when interpreting a successfully returned result.
| Input field | Meaning | Value type; see rules below | Requirement |
|---|---|---|---|
| nucleosomeRepeatLengthBp | Nucleosome repeat length (bp) | number; minimum: 0 | Required |
| coreParticleLengthBp | Core particle length (bp) | number; minimum: 0 | Required |
Enter nonnegative lengths; return signed difference and strictly positive flag.
linker=repeat−core Units, indexing, boundary conditions and exceptional cases are defined in the calculation rules above.
| Output field | Meaning | Value type |
|---|---|---|
| linkerDnaLengthBp | Linker DNA length (bp) | number |
| positiveLinker | Linker length is positive | boolean |
{
"input": {
"nucleosomeRepeatLengthBp": 200,
"coreParticleLengthBp": 147
},
"output": {
"linkerDnaLengthBp": 53,
"positiveLinker": true
}
}Limitations and assumptions
Negative results are preserved. No structure or spacing is measured.
Numeric inputs, where present, must be finite. Follow the calculation-specific rules for overflow, underflow and exceptional cases. Missing required fields, extra fields, wrong value types and violations of the calculation rules are input errors. A successfully returned false flag is an evaluated outcome; its meaning is explained above.
Alternative or Complementary methods
Use Nucleosome Repeat Length: Estimate nucleosome repeat length from ordered periodicity peaks. For a complementary task, use Nucleosome Positioning: Classify nucleosome positioning from center dispersion.
References
-
Linker DNA Length — tool.io
Similar or alternative tools
- Nucleosome Repeat Length
Estimate nucleosome repeat length from ordered periodicity peaks.
- Nucleosome Positioning
Classify nucleosome positioning from center dispersion.