Up: Component summary Component

SequenceFilter

Filters out nucleotide sequences that do not satisfy the criteria.

Version	1.0
Bundle	microarray
Categories	Filter
Authors	Marko Laakso (Marko.Laakso@Helsinki.FI)
Issue tracker	View/Report issues
Requires	Asser.jar (jar)
Source files	component.xml
Usage	Example with default values SequenceFilter( sequences = FASTA, maxLength = -1, maxN = 1, maxNSeq = -1, minLength = 0, relative = true )

Inputs

Name	Type	Mandatory	Description
sequences	FASTA	Mandatory	All candidate sequences

Outputs

Name	Type	Description
selection	FASTA	Accepted sequences

Parameters

Name	Type	Default	Description
maxLength	int	-1	Maximum length of the sequences or a negative number to disable this filter
maxN	float	1	Maximum number (relative=false) or ratio (relative=true) of unknown nucleotides
maxNSeq	int	-1	Maximum number of consecutive missing nucleotides or a negative number to disable this filter
minLength	int	0	Minimum length of the sequences
relative	boolean	true	If this parameter is true then maxN tells the maximum of the number of unknown nucleotides divided by the length of the sequence.

Test cases

Test case	Parameters▼	IN sequences	OUT selection
case1	properties	sequences	selection
	maxN=0.5, maxNSeq=5, minLength=10, maxLength=20

Generated 2019-02-08 07:42:10 by Anduril 2.0.0