additional
identifier
which
properly
disambiguates
the
structure
view
from
any
other
view
with
the
same
attributes.
This
is
not
an
ID,
because
it
is
possible
to
have
many
references
to
the
same
physical
structure
view
from
different
sequences
in
an
alignment.
A
structureState
element
citing
the
same
viewId
will
appear
for
each
instance.
Flag
set
if
the
alignment
panel
containing
this
JSeq
should
be
included
in
those
used
to
perform
a
structure
superposition
(since
Jalview
2.7).
Flag
set
if
the
alignment
panel
containing
this
JSeq
should
be
included
in
those
used
to
colour
its
associated
sequences
in
this
structureState(since
Jalview
2.7).
Flag
set
if
the
structure
display
is
coloured
by
the
Jmol
state,
rather
than
by
one
or
more
linked
alignment
views.
An
identifier
for
the
viewer
type,
currently
either
JMOL
or
CHIMERA
Reference to a viewer showing RNA structure
for this sequence. Schema supports one viewer showing multiple
annotations for multiple sequences, though currently only one
annotation for one sequence (gapped or trimmed) is used
id attribute of Annotation in
vamsasModel for
the secondary structure annotation shown
in the viewer
if true the RNA structure is shown with gaps, if false without
name of the project jar entry that holds
the VARNA viewer state for the structure
An id unique to the RNA viewer panel
horizontal position of split pane divider
Index of the selected structure in the
viewer panel
Optional sequence group ID (only
needs to be
unique for this
alignment)
handle for the calculation which uses
this parameter set
should the calculation be performed
immediately after loading in order to refresh results
should the calculation be automatically
performed on edits
unique id used by jalview to
synchronize
between stored and
instantiated views
The viewport id of this viewport's
(cdna/protein) coding complement, if any
Tree ID added for binding tree
visualization
settings to vamsas
document trees in jalview 2.4.1
endpoints of X, Y and Z axes in that order
name of feature attribute to colour by, or attribute and sub-attribute
optional filter(s) applied to the feature type
Optional minimum colour
for graduated
feature
colour
threshold value for
graduated feature colour
threshold type for
graduated feature colour
key2 may be used for a sub-attribute of key
base attributes for windows displayed in Jalview
desktop.
parameters that condition a similarity score calculation
The results of a PCA calculation