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 |