Searches each input sequence for significantly similar sequence matches to all specified HMM profiles. In case several profiles were supplied, searches with all profiles one by one and outputs output united set of annotations for each sequence
Element type: hmm2-search
Parameters
in GUI| Parameter | Description | Default value | Parameter in Workflow File | Type |
|---|---|---|---|---|
| Result annotation | Name of the result annotations. | hmm_signal | result-name | string |
| Filter by high E-value | E-value filtering can be used to exclude low-probability hits from result. | 1e-1 | e-val | numeric |
| Number of seqs | Calculates the E-value scores as if we had seen a sequence database of sequences. | 1 | seqs-num | numeric |
| Filter by low score | Score based filtering is an alternative to E-value filtering to exclude low-probability hits from result. | -1000000000.0 |
Parameters in Workflow File
Type: hmm2-search
| score | numeric |
Input/Output Ports
The element has 2 input port. The first gets the input sequence:
Name in GUI: Input sequence
Name in Workflow File: in-sequence
Slots:
| Slot In GUI | Slot in Workflow File | Type |
|---|---|---|
| Sequence | sequence | sequence |
The second input port gets the HMM profile:
Name in GUI: HMM profile
Name in Workflow File: in-hmm2
Slots:
| Slot In GUI | Slot in Workflow File | Type |
|---|---|---|
| HMM profile | hmm2-profile | hmm2-profile |
And 1 output port:
Name in GUI: HMM annotations
Name in Workflow File: out-annotations
Slots:
| Slot In GUI | Slot in Workflow File | Type |
|---|---|---|
| Set of annotations | annotations | annotation-table |