Package org.moltools.lib.seq.impl

Examples of org.moltools.lib.seq.impl.SimpleNucleotideSequence

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          tp = null;
        }
       
        if (tp == null || fp == null) throw new UnsupportedOperationException("Can't perform ligation calculations with missing TSSs"); //$NON-NLS-1$
       
        if (isLigationTemplate(new SimpleNucleotideSequence(tp.
            seqString() + fp.seqString(),
            "Arms of " + p.getName(), //$NON-NLS-1$
            p.getType()), other, false, false) != null) {
          ProbeMakerPropertyUtils.addMessage(p.getTSSPair(),new Message("May act as template for " + //$NON-NLS-1$
              other.getName(),
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            String temp = ""; //$NON-NLS-1$
            //Add a new nucleotide until the correct length is achieved
            for (int i = 0; i < spacerLength; i++) {
              temp += spacerString.charAt(i % spacerString.length());
            }
            spacer = new SimpleNucleotideSequence("Spacer " + temp, temp, p.getType()); //$NON-NLS-1$
          }
          else {
            //Create a new spacer lib for the spacer position and get the first tag
            taglibraries[spacerPosition] = new SpacerLibrary(spacerLength,
                p.getType());
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Related Classes of org.moltools.lib.seq.impl.SimpleNucleotideSequence

  • org.moltools.apps.probemaker.calculators.PadlockLigationCalculator
  • org.moltools.apps.probemaker.design.SpacerLibrary
  • org.moltools.apps.probemaker.ext.mod.FalsePrimingModule
  • org.moltools.apps.probemaker.ext.ta.GreedyTagAllocator
  • org.moltools.apps.probemaker.ext.tc.DefaultTSSConstructor
  • org.moltools.apps.probemaker.ext.tc.NoTSSConstructor
  • org.moltools.apps.probemaker.ext.tc.TemplateTSSConstructor
  • org.moltools.apps.probemaker.project.ProjectIOTask
  • org.moltools.apps.probemaker.project.ProjectXMLIOTask
  • org.moltools.apps.probemaker.test.HybInterferenceModuleTest
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