Method Detail

• location

  Location location()

  Get the location of the feature.

  Returns:

  The location.

• group

  java.lang.String group()

  Get the group id of the feature. The group id is defined in the GFF1 format; features that share a common group id are presumed to be part of some logical group. For example, a gene might be represented by several exon features that all share the same group id.
  
  The exact meaning of a feature's group id, or even its existence, is not guaranteed by this interface. An understanding of a particular file's data format is necessary to properly interpret the group id.

  Returns:

  The group id. This may be an empty string.

• type

  java.lang.String type()

  Get the feature type, for example, "exon", "CDS", etc.

  Returns:

  The type.

• seqname

  java.lang.String seqname()

  Get the sequence name.

  Returns:

  Sequence name.

• getAttribute

  java.lang.String getAttribute(java.lang.String key)

  Get the attribute value for this key.

  Parameters:

  key - The key.

  Returns:

  The corresponding value. Null if the key has no value defined .

• hasAttribute

  boolean hasAttribute(java.lang.String key)

  Check if the feature has a value defined for the specified key.

  Parameters:

  key - The key.

  Returns:

  True if a value is defined for this key.

• hasAttribute

  boolean hasAttribute(java.lang.String key,
                       java.lang.String value)

  Check if the feature attributes include the specified key/value pair.

  Parameters:

  key - The key.

  value - The value.

  Returns:

  True if the feature's value for this key matches the specified value.

• toString

  java.lang.String toString()

  A string representation of the feature.

  Overrides:

  toString in class java.lang.Object

  Returns:

  The string.

• userData

  java.util.HashMap<java.lang.String,java.lang.String> userData()

  Get HashMap of user data.

  Returns:

  The user HashMap.

• getAttributes

  java.util.HashMap<java.lang.String,java.lang.String> getAttributes()