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net.sf.* |
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net.sf.snver.pileup.SNVerIndividual | ||
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public static final java.lang.String |
POST_FIX |
".raw.vcf" |
net.sf.snver.pileup.config.AbstractConfigurationFactory | ||
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protected static final java.lang.String |
NULL |
"NULL" |
net.sf.snver.pileup.config.Dictionary | ||
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public static final java.lang.String |
CUT_OFF |
"CUT_OFF" |
protected static final java.lang.String |
FWER |
"bonferroni=" |
public static final java.lang.String |
HELP |
"-h" |
public static final java.lang.String |
HELP_ALIAS |
"-help" |
public static final java.lang.String |
INPUT_BAM |
"-i" |
public static final java.lang.String |
INPUT_INI |
"-c" |
public static final java.lang.String |
INPUT_REF |
"-r" |
public static final java.lang.String |
INPUT_REGION |
"-l" |
public static final java.lang.String |
OPTION_A |
"-a" |
public static final java.lang.String |
OPTION_HAPLOIDS |
"-n" |
public static final java.lang.String |
OPTION_HETEROZYGOSITY |
"-het" |
public static final java.lang.String |
OPTION_RATIO |
"-b" |
public static final java.lang.String |
OPTION_TEST |
"-u" |
public static final java.lang.String |
OPTION_THETA |
"-t" |
public static final java.lang.String |
OUTPUT_PREFIX |
"-o" |
public static final java.lang.String |
THRESHOLD_BQ |
"-bq" |
public static final java.lang.String |
THRESHOLD_FISHER |
"-f" |
public static final java.lang.String |
THRESHOLD_MQ |
"-mq" |
public static final java.lang.String |
THRESHOLD_P |
"-p" |
public static final java.lang.String |
THRESHOLD_STRAND |
"-s" |
public static final int |
TYPE_BOOLEAN |
4 |
public static final int |
TYPE_DOUBLE |
3 |
protected static final int |
TYPE_FILE |
0 |
public static final int |
TYPE_INTEGER |
1 |
public static final int |
TYPE_LONG |
2 |
public static final int |
TYPE_NULLABLE |
-2 |
public static final int |
TYPE_STRING |
-1 |
protected static final int |
TYPE_UNKNOWN |
-3 |
net.sf.snver.pileup.util.NumFormat | ||
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protected static final java.lang.String |
INFINITY |
"Inf" |
protected static final java.lang.String |
NAN |
"NaN" |
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