Enum BlastAlignmentParameterEnum
- java.lang.Object
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- java.lang.Enum<BlastAlignmentParameterEnum>
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- org.biojava.nbio.ws.alignment.qblast.BlastAlignmentParameterEnum
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- All Implemented Interfaces:
Serializable
,Comparable<BlastAlignmentParameterEnum>
public enum BlastAlignmentParameterEnum extends Enum<BlastAlignmentParameterEnum>
Alignment request parameters accepted by QBlast service.
Not all are mandatory. Certain parameters only work with a subset of other parameters in the list. Taken from Blast URL API- Author:
- Gediminas Rimsa
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Enum Constant Summary
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Method Summary
All Methods Static Methods Concrete Methods Modifier and Type Method Description static BlastAlignmentParameterEnum
valueOf(String name)
Returns the enum constant of this type with the specified name.static BlastAlignmentParameterEnum[]
values()
Returns an array containing the constants of this enum type, in the order they are declared.
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Enum Constant Detail
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CMD
public static final BlastAlignmentParameterEnum CMD
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TOOL
public static final BlastAlignmentParameterEnum TOOL
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EMAIL
public static final BlastAlignmentParameterEnum EMAIL
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ALIGNMENTS
public static final BlastAlignmentParameterEnum ALIGNMENTS
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BLAST_PROGRAM
public static final BlastAlignmentParameterEnum BLAST_PROGRAM
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CDD_SEARCH
public static final BlastAlignmentParameterEnum CDD_SEARCH
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COMPOSITION_BASED_STATISTICS
public static final BlastAlignmentParameterEnum COMPOSITION_BASED_STATISTICS
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DATABASE_PREFIX
public static final BlastAlignmentParameterEnum DATABASE_PREFIX
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DATABASE
public static final BlastAlignmentParameterEnum DATABASE
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DB_GENETIC_CODE
public static final BlastAlignmentParameterEnum DB_GENETIC_CODE
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DESCRIPTIONS
public static final BlastAlignmentParameterEnum DESCRIPTIONS
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ENTREZ_QUERY
public static final BlastAlignmentParameterEnum ENTREZ_QUERY
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EXPECT
public static final BlastAlignmentParameterEnum EXPECT
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FILTER
public static final BlastAlignmentParameterEnum FILTER
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FIRST_QUERY_NUM
public static final BlastAlignmentParameterEnum FIRST_QUERY_NUM
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GAPCOSTS
public static final BlastAlignmentParameterEnum GAPCOSTS
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GENETIC_CODE
public static final BlastAlignmentParameterEnum GENETIC_CODE
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HITLIST_SIZE
public static final BlastAlignmentParameterEnum HITLIST_SIZE
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I_THRESH
public static final BlastAlignmentParameterEnum I_THRESH
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LCASE_MASK
public static final BlastAlignmentParameterEnum LCASE_MASK
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MATCH_SCORES
public static final BlastAlignmentParameterEnum MATCH_SCORES
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MATRIX_NAME
public static final BlastAlignmentParameterEnum MATRIX_NAME
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MAX_NUM_SEQ
public static final BlastAlignmentParameterEnum MAX_NUM_SEQ
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MEGABLAST
public static final BlastAlignmentParameterEnum MEGABLAST
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NUM_OVERVIEW
public static final BlastAlignmentParameterEnum NUM_OVERVIEW
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OTHER_ADVANCED
public static final BlastAlignmentParameterEnum OTHER_ADVANCED
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PERC_IDENT
public static final BlastAlignmentParameterEnum PERC_IDENT
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PHI_PATTERN
public static final BlastAlignmentParameterEnum PHI_PATTERN
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PROGRAM
public static final BlastAlignmentParameterEnum PROGRAM
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PSSM
public static final BlastAlignmentParameterEnum PSSM
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QUERY
public static final BlastAlignmentParameterEnum QUERY
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QUERY_BELIEVE_DEFLINE
public static final BlastAlignmentParameterEnum QUERY_BELIEVE_DEFLINE
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QUERY_FROM
public static final BlastAlignmentParameterEnum QUERY_FROM
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QUERY_TO
public static final BlastAlignmentParameterEnum QUERY_TO
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REPEATS
public static final BlastAlignmentParameterEnum REPEATS
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SHORT_QUERY_ADJUST
public static final BlastAlignmentParameterEnum SHORT_QUERY_ADJUST
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SEARCHSP_EFF
public static final BlastAlignmentParameterEnum SEARCHSP_EFF
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TEMPLATE_LENTH
public static final BlastAlignmentParameterEnum TEMPLATE_LENTH
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TEMPLATE_TYPE
public static final BlastAlignmentParameterEnum TEMPLATE_TYPE
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THRESHOLD
public static final BlastAlignmentParameterEnum THRESHOLD
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TWO_HITS
public static final BlastAlignmentParameterEnum TWO_HITS
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WORD_SIZE
public static final BlastAlignmentParameterEnum WORD_SIZE
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WWW_BLAST_TYPE
public static final BlastAlignmentParameterEnum WWW_BLAST_TYPE
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Method Detail
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values
public static BlastAlignmentParameterEnum[] values()
Returns an array containing the constants of this enum type, in the order they are declared. This method may be used to iterate over the constants as follows:for (BlastAlignmentParameterEnum c : BlastAlignmentParameterEnum.values()) System.out.println(c);
- Returns:
- an array containing the constants of this enum type, in the order they are declared
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valueOf
public static BlastAlignmentParameterEnum valueOf(String name)
Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)- Parameters:
name
- the name of the enum constant to be returned.- Returns:
- the enum constant with the specified name
- Throws:
IllegalArgumentException
- if this enum type has no constant with the specified nameNullPointerException
- if the argument is null
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