Constant Field Values

Contents

• io.github.*

io.github.*

io.github.bigbio.pgatk.io.common.cluster.ClusteringFileSpectrumReference

Modifier and Type	Constant Field	Value
public final int	INDEX_CHARGE	5
public final int	INDEX_ID	1
public final int	INDEX_MODIFICATIONS	7
public final int	INDEX_PRECURSOR_MZ	4
public final int	INDEX_SEQUENCE	3
public final int	INDEX_SIMILARITY_SCORE	8
public final int	INDEX_SPECIES	6
public final String	SEPARATOR	"\t"

io.github.bigbio.pgatk.io.mgf.MgfUtils

Modifier and Type	Constant Field	Value
public static final boolean	DEFAULT_ALLOW_CUSTOM_TAGS	false
public static final boolean	DEFAULT_IGNORE_WRONG_PEAKS	false
public static final String	mgfCommentRegex	"^[#;!/].*"

io.github.bigbio.pgatk.io.mzxml.mzxml.model.ModelConstants

Modifier and Type	Constant Field	Value
public static final String	MODEL_PKG	"io.github.bigbio.pgatk.io.mzxml.mzxml.model"
public static final String	MZXML_NAMESPACE	""

io.github.bigbio.pgatk.io.objectdb.WaitingHandler

Modifier and Type	Constant Field	Value
public static final String	TAB_HTML	"        "
public static final String	TAB_NON_HTML	" "

io.github.bigbio.pgatk.io.properties.ChronicleMapPropertyStorage<T>

Modifier and Type	Constant Field	Value
public static final long	MAX_NUMBER_FEATURES	100000000L

io.github.bigbio.pgatk.io.properties.KnownProperties

Modifier and Type	Constant Field	Value
public static final String	MOST_COMMON_PEPTIDE_KEY	"mostCommonPeptide"
public static final String	N_HIGHEST_PEAKS	"n_highest_peaks"
public static final String	PEPTIDE_PURITY_STRING	"peptidePurityString"
public static final String	PEPTIDES_LIST_COMMA_DELIMITED	"peptidesListCommaDelimited"

io.github.bigbio.pgatk.io.properties.StoredProperties

Modifier and Type	Constant Field	Value
public static final String	CHARGE	"Charge"
public static final String	FILE_INDEX	"Index"
public static final String	FILE_SCAN	"Scan"
public static final String	ORG_FILENAME	"Filename"
public static final String	ORIGINAL_PEAKS_INTENS	"org_peaks_intens"
public static final String	ORIGINAL_PEAKS_MZ	"org_peaks_mz"
public static final String	PRECURSOR_MZ	"Prec_mz"
public static final String	PTMS	"PTMs"
public static final String	RETENTION_TIME	"RT"
public static final String	SEARCH_ENGINE_SCORE_TYPES	"search_score_types"
public static final String	SEARCH_ENGINE_SCORES	"search_scores"
public static final String	SEQUENCE	"Sequence"
public static final String	TITLE	"spectrum title"

io.github.bigbio.pgatk.io.utils.msnumpress.MSNumpress

Modifier and Type	Constant Field	Value
public static final String	ACC_NUMPRESS_LINEAR	"MS:1002312"
public static final String	ACC_NUMPRESS_PIC	"MS:1002313"
public static final String	ACC_NUMPRESS_SLOF	"MS:1002314"