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java.lang.Objecthalo.tools.Tools
public class Tools
Class containing several tools used for HALO analyses
Field Summary | |
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static java.lang.String |
HOMEPAGE
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static java.lang.String |
HOMEPAGEDOC
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static java.lang.String |
LIBRARYNAME
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static java.lang.String |
VERSION
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Constructor Summary | |
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Tools()
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Method Summary | |
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static double |
calculateMedianForHalfLives(double time,
Data data)
Calculates the average median over two available half-life calculation methods |
static java.util.ArrayList<java.lang.String> |
getColumnLabels(java.io.File file)
Reads the header/description line of a given file and provides all column labels (columns separated by tabulator) as a list |
static boolean |
hasLineColumns(java.lang.String line,
int columns)
Checks whether a line consists of at least the given number of columns, whereas columns are separated through any whitespace sign |
static boolean |
isLineValid(java.lang.String line)
Tests if a given line is composed of the letters a-z (case ignored), numbers or whitespace symbols like TAB |
static boolean |
testValidityForFile(java.io.File file,
int columns,
boolean permitUnusualLetters)
Tests the correctness of a given file according to format (= minimal number of columns has to be correct) and letters (= are there any unusual letters present?) |
Methods inherited from class java.lang.Object |
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equals, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
Field Detail |
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public static final java.lang.String LIBRARYNAME
public static final java.lang.String VERSION
public static final java.lang.String HOMEPAGE
public static final java.lang.String HOMEPAGEDOC
Constructor Detail |
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public Tools()
Method Detail |
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public static java.util.ArrayList<java.lang.String> getColumnLabels(java.io.File file)
file
- The file containing the expression data
public static boolean isLineValid(java.lang.String line)
line
- The line that will be tested
public static boolean hasLineColumns(java.lang.String line, int columns)
line
- The line that will be checked for validitycolumns
- The minimal number of columns that has to be in this line
public static boolean testValidityForFile(java.io.File file, int columns, boolean permitUnusualLetters)
file
- The input file that will be testedcolumns
- The minimal number of columns that has to be present in the file
public static double calculateMedianForHalfLives(double time, Data data)
time
- The labeling time for the calculationsdata
- The data
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