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Parameters in GUI

TrueTrue

Parameter	Description	Default value
Annotation names (required)	List of annotation names which will be accepted or filtered. Use space as the separator.
Accept of filter	Selects the name filter: accept specified names or accept all except specified.	AcceptTranslate	Translates the annotated regions if the corresponding annotation marks a protein subsequence.	False
Complement	Complements the annotated regions if the corresponding annotation is located on the complement strand.	False	Translate	Translates the annotated regions if the corresponding annotation marks a protein subsequence.
Split joined	Split joined annotations to single region annotations.	False
Extend left	Extends the resulted regions to left.	0
Extend right	Extends the resulted regions to right.	0
Gap length	Inserts a gap of a specified length between the merged locations of the annotation.	10

Parameters in Workflow File

Type: extract-annotated-sequence

Translate

Parameter	Parameter in the GUI	Type
annotation-names	Annotation names	string
accept-or-filter	Accept or filter	boolean Available values are: true - for accept false - for filter
translate	Translate	boolean
complement	Complement	boolean	translate
split-joined-annotations	Split joined	boolean
extend-left	Extend left	numeric
extend-right	Extend right	numeric
merge-gap-length	Gap length	numeric

Input/Output Ports

The element has 1 input port:

Name in GUI: Input sequence

Name in Workflow File: in-sequence

Slots:

Slot In GUI	Slot in Workflow File	Type
Sequence	sequence	sequence
Set of annotations	annotations	annotation-table

And 1 output port:

Name in GUI: Annotated regions

Name in Workflow File: out-sequence

Slots:

Slot In GUI	Slot in Workflow File	Type
Sequence	sequence	sequence	Set of annotations	annotations	annotation-table