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Simulates PCR for input sequences and primer pairs. Creates the table with the PCR statistics.

Element type: in-silico-pcr

Parameters

ParameterDescriptionDefault valueParameter in Workflow FileType
Primers URLA URL to the input file with primer pairs.
primers-urlstring
Report URLA URL to the output file with the PCR report.
report-urlstring
MismatchesNumber of allowed mismatches.3mismatchesnumeric
Min perfect matchNumber of bases that match exactly on 3' end of primers.15perfect-matchnumeric
Max product sizeMaximum size of amplified region.5000max-productnumeric

Use ambiguous bases

Search for ambiguous bases (as \"N\") if checked.True

use-ambiguous-bases

boolean

Extract annotations

Extract annotations within a product region.

Inner

extract-annotations

string


Input/Output Ports

The element has 1 input port:

Name in GUI: Input sequence

Name in Workflow File: in-sequence

Slots:

Slot In GUISlot in Workflow FileType
Sequencesequencesequence

And 1 output port:

Name in GUI: PCR product

Name in Workflow File: out

Slots:

Slot In GUISlot in Workflow FileType
Set of annotationsannotationsannotation-table
Sequencesequencesequence
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