Simulates PCR for input sequences and primer pairs. Creates the table with the PCR statistics.
Parameters in GUI
| Parameter | Description | Default value |
|---|---|---|
| Primers URL | A URL to the input file with primer pairs. | |
| Report URL | A URL to the output file with the PCR report. | |
| Mismatches | Number of allowed mismatches. | 3 |
| Min perfect match | Number of bases that match exactly on 3' end of primers. | 15 |
| Max product size | Maximum size of amplified region. | 5000 |
Parameters in Workflow File
Type: in-silico-pcr
| Parameter | Parameter in the GUI | Type |
|---|---|---|
| primers-url | Primers URL | string |
| report-url | Report URL | string |
| mismatches | Mismatches | numeric |
| perfect-match | Min perfect match | numeric |
| max-product | Max product size | 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 |
And 1 output port:
Name in GUI: PCR product
Name in Workflow File: out
Slots:
| Slot In GUI | Slot in Workflow File | Type |
|---|---|---|
| Set of annotations | annotations | annotation-table |
| Sequence | sequence | sequence |