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Reads sequences and annotations if any from a remote database.

Parameters in GUI

ParameterDescriptionDefault 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 directoryDirectory to store a file loaded from the database.default
Read resource ID(s) from sourceThe source to read resource IDs from: the list or a local file.List of TDs

Parameters in Workflow File

Type: fetch-sequence

ParameterParameter in the GUIType
resource-idResource IDsstring
databaseDatabase

string

Available values are:

  • ncbi-dna (NCBI GenBank (DNA sequence))
  • ncbi-protein (NCBI protein sequence database)
  • pdb (PDB)
  • swiss-plot (SWISS-PROT)
  • uniprot-swiss-prot (UniProtKB/Swiss-Prot)
  • uniprot-trembl (UniProtKB/TrEMBL)
save-dirSave file to directorystring
ids-sourceRead resource ID(s) from sourcestring

Input/Output Ports

The element has 1 output port:

Name in GUI: Sequence

Name in Workflow File: out-sequence

Slots:

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