Workflow: Runs InterProScan on batches of sequences to retrieve functional annotations.

Fetched 2024-02-28 22:39:47 GMT
children parents
Workflow as SVG
  • Selected
  • Default Values
  • Nested Workflows
  • Tools
  • Inputs/Outputs


ID Type Title Doc
seqtype (Optional) Sequence type

Optional, the type of the input sequences (dna/rna (n) or protein (p)). The default sequence type is protein.

databases Directory
inputFile File [FASTA] Input file path

Optional, path to fasta file that should be loaded on Master startup. Alternatively, in CONVERT mode, the InterProScan 5 XML file to convert.

chunk_size Integer
applications[] (Optional) Analysis

Optional, comma separated list of analyses. If this option is not set, ALL analyses will be run.

outputFormat[] (Optional) output format

Optional, case-insensitive, comma separated list of output formats. Supported formats are TSV, XML, JSON, GFF3, HTML and SVG. Default for protein sequences are TSV, XML and GFF3, or for nucleotide sequences GFF3 and XML.

disableResidueAnnotation Boolean (Optional) Disables residue annotation

Optional, excludes sites from the XML, JSON output.


ID Runs Label Doc
../utils/fasta_chunker.cwl (CommandLineTool)
split FASTA by number of records

based upon code by developers from EMBL-EBI

../utils/concatenate.cwl (CommandLineTool)
Redirecting Multiple Files Contain in a Single File

The cat (short for “concatenate“) command is one of the most frequently used command in Linux/Unix like operating systems. cat command allows us to create single or multiple files, view contain of file, concatenate files and redirect output in terminal or files.


ID Type Label Doc
i5Annotations File