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.
Elemet 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 |