Examples with MemoryPeakResults uk.ac.sussex.gdsc.smlm.results.MemoryPeakResults used on opensource projects

Example 71 with MemoryPeakResults

use of uk.ac.sussex.gdsc.smlm.results.MemoryPeakResults in project GDSC-SMLM by aherbert.

the class Filter method score.

/**
 * Filter the results and return the performance score. Allows benchmarking the filter by marking
 * the results as true or false.
 *
 * <p>Any input PeakResult with an original value that is not zero will be treated as a true
 * result, all other results are false. The filter is run and the results are marked as true
 * positive, false negative and false positive.
 *
 * <p>The number of consecutive rejections are counted per frame. When the configured number of
 * failures is reached all remaining results for the frame are rejected. This assumes the results
 * are ordered by the frame.
 *
 * @param resultsList a list of results to analyse
 * @param failures the number of failures to allow per frame before all peaks are rejected
 * @return the score
 */
public ClassificationResult score(List<MemoryPeakResults> resultsList, final int failures) {
    final int[] s = new int[4];
    for (final MemoryPeakResults peakResults : resultsList) {
        setup(peakResults);
        final FrameCounter counter = new FrameCounter();
        peakResults.forEach((PeakResultProcedure) peak -> {
            counter.advanceAndReset(peak.getFrame());
            final boolean isTrue = peak.getOrigValue() != 0;
            final boolean isPositive;
            if (counter.getCount() > failures) {
                isPositive = false;
            } else {
                isPositive = accept(peak);
            }
            if (isPositive) {
                counter.reset();
            } else {
                counter.increment();
            }
            if (isTrue) {
                if (isPositive) {
                    s[TP]++;
                } else {
                    s[FN]++;
                }
            } else if (isPositive) {
                s[FP]++;
            } else {
                s[TN]++;
            }
        });
        end();
    }
    return new ClassificationResult(s[TP], s[FP], s[TN], s[FN]);
}

Example 72 with MemoryPeakResults

use of uk.ac.sussex.gdsc.smlm.results.MemoryPeakResults in project GDSC-SMLM by aherbert.

the class PeakResultTableModel method toMemoryPeakResults.

// *************************************************************************/
// Data management
// *************************************************************************/
/**
 * To memory peak results.
 *
 * @return the memory peak results
 */
public MemoryPeakResults toMemoryPeakResults() {
    final ArrayPeakResultStore store = new ArrayPeakResultStore(data.size());
    store.addArray(data.toArray());
    final MemoryPeakResults results = new MemoryPeakResults(store);
    results.setPsf(psf);
    results.setCalibration(calibration);
    results.setSource(source);
    results.setConfiguration(configuration);
    return results;
}

Example 73 with MemoryPeakResults

use of uk.ac.sussex.gdsc.smlm.results.MemoryPeakResults in project GDSC-SMLM by aherbert.

the class PeakResultTableModelFrame method doResultsShowInfo.

private void doResultsShowInfo() {
    // Delegate to Summarise Results
    final PeakResultTableModel model = getModel();
    final MemoryPeakResults results = model.toMemoryPeakResults();
    results.setName("Table data: " + getTitle());
    SummariseResults.showSummary(Collections.singletonList(results));
}

Example 74 with MemoryPeakResults

use of uk.ac.sussex.gdsc.smlm.results.MemoryPeakResults in project GDSC-SMLM by aherbert.

the class PeakResultTableModelFrame method doResultsSave.

private void doResultsSave() {
    final PeakResultTableModel model = getModel();
    if (model == null || model.getRowCount() == 0) {
        return;
    }
    final ExtendedGenericDialog gd = new ExtendedGenericDialog("Save Results", this);
    if (TextUtils.isNullOrEmpty(saveName)) {
        saveName = getTitle();
    }
    gd.addStringField("Results_set_name", saveName, 30);
    gd.showDialog();
    if (gd.wasCanceled()) {
        return;
    }
    saveName = gd.getNextString();
    if (TextUtils.isNullOrEmpty(saveName)) {
        IJ.error("No results set name");
        return;
    }
    final MemoryPeakResults results = model.toMemoryPeakResults();
    results.setName(saveName);
    MemoryPeakResults.addResults(results);
}

Example 75 with MemoryPeakResults

use of uk.ac.sussex.gdsc.smlm.results.MemoryPeakResults in project GDSC-SMLM by aherbert.

the class TraceMolecules method saveResults.

/**
 * Convert the traces to results.
 *
 * @param sourceResults the source results
 * @param traces the traces
 * @param name the name
 * @return the memory peak results
 */
static MemoryPeakResults saveResults(MemoryPeakResults sourceResults, Trace[] traces, String name) {
    final MemoryPeakResults tracedResults = TraceManager.convertToPeakResults(sourceResults, traces);
    tracedResults.setName(sourceResults.getName() + " " + name);
    MemoryPeakResults.addResults(tracedResults);
    return tracedResults;
}