io.github.bigbio.pgatk.io.mgf

Class MgfUtils

java.lang.Object

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

public class MgfUtils
extends Object

Nested Class Summary

Nested Classes

Modifier and Type	Class and Description
static class	MgfUtils.FragmentToleranceUnits
static class	MgfUtils.MassType
static class	MgfUtils.PeptideToleranceUnit
static class	MgfUtils.ReportType
static class	MgfUtils.SearchType

Field Summary

Fields

Modifier and Type	Field and Description
static Pattern	attributePattern Regex to recognize a attribute and extract its name and value
static int	BUFFER_SIZE
static boolean	DEFAULT_ALLOW_CUSTOM_TAGS
static boolean	DEFAULT_IGNORE_WRONG_PEAKS
static String	mgfCommentRegex Regex to capture mgf comments in mgf files.

Constructor Summary

Constructors

Constructor and Description
MgfUtils()

Method Summary

Modifier and Type	Method and Description
static double[]	parsePeakLine(String line)

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Field Detail

BUFFER_SIZE

public static int BUFFER_SIZE

DEFAULT_ALLOW_CUSTOM_TAGS

public static final boolean DEFAULT_ALLOW_CUSTOM_TAGS

See Also:

Constant Field Values

DEFAULT_IGNORE_WRONG_PEAKS

public static final boolean DEFAULT_IGNORE_WRONG_PEAKS

See Also:

Constant Field Values

mgfCommentRegex

public static final String mgfCommentRegex

Regex to capture mgf comments in mgf files.

See Also:

Constant Field Values

attributePattern

public static final Pattern attributePattern

Regex to recognize a attribute and extract its name and value

Constructor Detail

MgfUtils

public MgfUtils()

Method Detail

parsePeakLine

public static double[] parsePeakLine(String line)