Sequence Quality Trimmer Element
This tool scans each input sequence from the end to find the first position where the quality is greater than or equal to the minimum quality threshold. It then trims the sequence to that position. If an entire sequence has quality less than the threshold or if the length of the output sequence is less than the minimum length threshold, the sequence is skipped.
Element type: SequenceQualityTrim
Parameters
| Parameter | Description | Default Value | Parameter in Workflow File | Type |
|---|---|---|---|---|
| Trimming quality threshold | Quality threshold for trimming. | 30 | qual-id | numeric |
| Min length | Too short reads are discarded by the filter. | 0 | len-id | numeric |
| 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 | 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 GUI | Slot in Workflow File | Type |
|---|---|---|
| Sequence | sequence | sequence |
And 1 output port:
Name in GUI: Output data
Name in Workflow File: out-sequence
Slots:
| Slot In GUI | Slot in Workflow File | Type |
|---|---|---|
| Sequence | sequence | sequence |