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Alphabet
.
0
for
arbitrary length
StartDistanceForecaster
that returns the
median of a limited memory over the last values.slots
memory slots
that will initially be filled with value
.
Parameter
s from the leaves of this tree in
left-to-right order (as specified by the order of the alphabet) and
returns them as a LinkedList
.
ResultSet
s that are part of this
ListResult
Result
that contains a list or a matrix, respectively, of
ResultSet
s.ListResult
from an array of ResultSet
s and
a ResultSet
of annotations, which may provide additional
information on this ListResult
.
Storable
.
ParameterSet
.
SequenceAnnotation
that has a position on the sequence,
e.g for transcription start sites or intron-exon junctions.LocatedSequenceAnnotation
of type type
with identifier identifier
and additional annotation (that
does not fit the SequenceAnnotation
definitions) given as an
array of Result
s result
.
LocatedSequenceAnnotation
of type type
with identifier identifier
and additional annotation (that
does not fit the SequenceAnnotation
definitions) given as a
Collection
of Result
s result
.
LocatedSequenceAnnotation
of type type
with identifier identifier
, additional annotation (that does
not fit the SequenceAnnotation
definitions) given as an array of
Result
s additionalAnnotation
and sub-annotations
annotations
.
LocatedSequenceAnnotation
of type type
with identifier identifier
, additional annotation (that does
not fit the SequenceAnnotation
definitions) given as an array of
Result
s additionalAnnotation
and sub-annotations
annotations
.
Storable
.
SequenceAnnotation
that has a position on the sequence
and a length, e.g. for donor splice sites, exons or genes.LocatedSequenceAnnotationWithLength
of type
type
with identifier identifier
and additional
annotation (that does not fit the SequenceAnnotation
definitions)
given as an array of Result
s result
.
LocatedSequenceAnnotationWithLength
of type
type
with identifier identifier
and additional
annotation (that does not fit the SequenceAnnotation
definitions)
given as a Collection
of Result
s result
.
LocatedSequenceAnnotationWithLength
of type
type
with identifier identifier
, additional
annotation (that does not fit the SequenceAnnotation
definitions)
given as an array of Result
s additionalAnnotations
and sub-annotations annotations
.
LocatedSequenceAnnotationWithLength
of type
type
with identifier identifier
, additional
annotation (that does not fit the SequenceAnnotation
definitions)
given as an array of Result
s additionalAnnotations
and sub-annotations annotations
.
Storable
.
double
contains the sum of the logarithm of the gamma
functions used in the prior.
double
contains the logarithm of the normalization
constant of hidden parameters of the instance.
Sequence
in the given interval.
d
with the values
of d
given as d[i] = Math.log( val[i] )
.
d
between start
index startD
and end index endD
with the values
of d
given as d[i] = Math.log( val[i] )
.
d
within start
index startD
and end index endD
with the values
of d
given as d[i] = Math.log( val[i] )
.
d
between start
index startD
and end index endD
with the values
of d
given as d[i] = Math.log( val[i] )
.
d
within start
index startD
and end index endD
with the values
of d
given logarithmised:
d[i] = Math.log( val[i] )
.
d
with the values
of d
given as d[i] = Math.log( val[i] )
using
offset offset
.
d
between start
index startD
and end index endD
with the values
of d
given as d[i] = Math.log( val[i] )
using
offset offset
.
d
between start
index startD
and end index endD
with the values
of d
given as d[i] = Math.log( val[i] )
using
offset offset
.
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