NSC Quality
Calculate normalized strand cross-correlation and quality gate.
Description
Normalized strand cross-correlation compares a supplied maximum with a background baseline.
Normalized strand cross-correlation compares a supplied maximum with a background baseline.1
Calculate normalized strand cross-correlation and quality gate.
When to use NSC Quality
Use this tool to calculate normalized strand cross-correlation and quality gate.
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 NSC Quality 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 maximumCrossCorrelation, backgroundCrossCorrelation, minimumNsc using the field table and calculation rules, then run the tool.
- Read normalizedStrandCrossCorrelation, passesGate. 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 |
|---|---|---|---|
| maximumCrossCorrelation | Maximum strand cross-correlation | number; minimum: 0 | Required |
| backgroundCrossCorrelation | Background cross-correlation | number; minimum: 0 | Required |
| minimumNsc | Minimum NSC | number; minimum: 0 | Required |
Enter nonnegative maximum/minimum and positive background; return NSC and inclusive gate.
NSC=maximumCorrelation/backgroundCorrelation Units, indexing, boundary conditions and exceptional cases are defined in the calculation rules above.
| Output field | Meaning | Value type |
|---|---|---|
| normalizedStrandCrossCorrelation | Normalized strand cross-correlation | number; minimum: 0 |
| passesGate | Passes NSC gate | boolean |
{
"input": {
"maximumCrossCorrelation": 0.1,
"backgroundCrossCorrelation": 0.05,
"minimumNsc": 1.5
},
"output": {
"normalizedStrandCrossCorrelation": 2,
"passesGate": true
}
}Limitations and assumptions
No correlation curve, shifts or assay-specific quality standard is calculated.
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 Phantom-Peak Quality: Rate fragment versus phantom cross-correlation peaks. For a complementary task, use Fragment Shift Distance: Calculate bimodal strand-peak shift distance.
References
-
NSC Quality — tool.io
Similar or alternative tools
- Phantom-Peak Quality
Rate fragment versus phantom cross-correlation peaks.
- Fragment Shift Distance
Calculate bimodal strand-peak shift distance.