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  • Sequence Quality Trimmer Element
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Scans each input sequence from the end to find the first position where the quality is greater or equal to the minimum quality threshold.

Then it trims the sequence to that position.

If a whole sequence has quality less than the threshold or the length of the output sequence less than the minimum length threshold then the sequence is skipped.

Parameters in GUI

ParameterDescriptionDefault value
Trimming quality threshold

Quality threshold for trimming.

30
Min length

Too short reads are discarded by the filter.

0
Trim both ends

Trim both ends of a read or not. Usually, you need to set True for Sanger sequencing and False for NGS

True

Parameters in Workflow File

Type: SequenceQualityTrim

ParameterParameter in the GUIType

qual-id

Trimming quality threshold

numeric

len-id

Min length

numeric

both-ends

Trim both ends

boolean

Input/Output Ports

The element has 1 input port. 

Name in GUI: Input data

Name in Workflow File: in-sequence

Slots:

Slot In GUISlot in Workflow FileType
Sequencesequencesequence

 And 1 output port:

Name in GUI: Output data

Name in Workflow File: out-sequence

Slots:

Slot In GUISlot in Workflow FileType
Sequencesequencesequence
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