Download sequence(s) with the specified ID(s) from one of the remote databases: NCBI, Ensembl, PDB, etc.
The sequences are downloaded with the associated annotations in a file format, specific for the selected database.
The element outputs message(s) with the sequence and annotations data.
Parameters in GUI
| Parameter | Description | Default value |
|---|---|---|
| Resource IDs (required) | Semicolon-separated list of resource IDs in the database. | |
| Database (required) | Name of the database to read from. | NCBI Genbank (DNA sequence) |
| Save file to directory | Directory to store a file loaded from the database. | default |
| Read resource ID(s) from source | The source to read resource IDs from the list or a local file. | List of TDs |
Parameters in Workflow File
Type: fetch-sequence
| Parameter | Parameter in the GUI | Type |
|---|---|---|
| resource-id | Resource IDs | string |
| database | Database | string Available values are:
|
| save-dir | Save file to directory | string |
| ids-source | Read resource ID(s) from source | string |
Input/Output Ports
The element has 1 output port:
Name in GUI: Sequence
Name in Workflow File: out-sequence
Slots:
| Slot In GUI | Slot in Workflow File | Type |
|---|---|---|
| Sequence | sequence | sequence |
| Set of annotations | annotations | annotation-table |