DirecTagParameters getAlgorithm() - Method in class .identification.identification_parameters.tool_specific. CometParameters getAlgorithm() - Method in class .identification.identification_parameters.tool_specific. AndromedaParameters getAlgorithm() - Method in class .identification.identification_parameters.tool_specific. getAlgorithm() - Method in class .identification.identification_parameters.tool_specific. DoubleMatrix equals(GenePreferences) - Method in class. Peak equals(DoubleMatrix) - Method in class .matrix. Charge equals(Object) - Method in class .massspectrometry. XtandemParameters equals(Object) - Method in class .massspectrometry. TideParameters equals(IdentificationAlgorithmParameter) - Method in class .identification.identification_parameters.tool_specific. PNovoParameters equals(IdentificationAlgorithmParameter) - Method in class .identification.identification_parameters.tool_specific. PepnovoParameters equals(IdentificationAlgorithmParameter) - Method in class .identification.identification_parameters.tool_specific. OmssaParameters equals(IdentificationAlgorithmParameter) - Method in class .identification.identification_parameters.tool_specific. NovorParameters equals(IdentificationAlgorithmParameter) - Method in class .identification.identification_parameters.tool_specific. MyriMatchParameters equals(IdentificationAlgorithmParameter) - Method in class .identification.identification_parameters.tool_specific.
![compomics searchgui compomics searchgui](https://www.uib.no/sites/w3.uib.no/files/pictures/picture-306508-1512566901.jpg)
MsgfParameters equals(IdentificationAlgorithmParameter) - Method in class .identification.identification_parameters.tool_specific. MsAmandaParameters equals(IdentificationAlgorithmParameter) - Method in class .identification.identification_parameters.tool_specific. DirecTagParameters equals(IdentificationAlgorithmParameter) - Method in class .identification.identification_parameters.tool_specific. CometParameters equals(IdentificationAlgorithmParameter) - Method in class .identification.identification_parameters.tool_specific. AndromedaParameters equals(IdentificationAlgorithmParameter) - Method in class .identification.identification_parameters.tool_specific. equals(IdentificationAlgorithmParameter) - Method in class .identification.identification_parameters.tool_specific. Returns true if the search parameter objects have identical settings. TideIdfileReader close() - Method in class. PNovoIdfileReader close() - Method in class .io.identifications.idfilereaders. PepxmlIdfileReader close() - Method in class .io.identifications.idfilereaders. PepNovoIdfileReader close() - Method in class .io.identifications.idfilereaders.
![compomics searchgui compomics searchgui](https://www.uib.no/sites/w3.uib.no/files/styles/wide_thumbnail/public/media/overview.png)
NovorIdfileReader close() - Method in class .io.identifications.idfilereaders. MzIdentMLIdfileReader close() - Method in class .io.identifications.idfilereaders. MsAmandaIdfileReader close() - Method in class .io.identifications.idfilereaders. DirecTagIdfileReader close() - Method in class .io.identifications.idfilereaders. AndromedaIdfileReader close() - Method in class .io.identifications.idfilereaders. close() - Method in class .io.identifications.idfilereaders.
![compomics searchgui compomics searchgui](https://www.compomics.com/wp-content/uploads/2019/07/icon.png)
TideIdfileReader clearVariableModifications() - Method in class .identification.identification_parameters.
![compomics searchgui compomics searchgui](https://www.uib.no/sites/w3.uib.no/files/styles/wide_thumbnail/public/w2/ds/dstexample_1.png)
PNovoIdfileReader clearTagsMap() - Method in class .io.identifications.idfilereaders. PepxmlIdfileReader clearTagsMap() - Method in class .io.identifications.idfilereaders. PepNovoIdfileReader clearTagsMap() - Method in class .io.identifications.idfilereaders. NovorIdfileReader clearTagsMap() - Method in class .io.identifications.idfilereaders. MzIdentMLIdfileReader clearTagsMap() - Method in class .io.identifications.idfilereaders. MsAmandaIdfileReader clearTagsMap() - Method in class .io.identifications.idfilereaders. DirecTagIdfileReader clearTagsMap() - Method in class .io.identifications.idfilereaders. AndromedaIdfileReader clearTagsMap() - Method in class .io.identifications.idfilereaders. clearTagsMap() - Method in class .io.identifications.idfilereaders.