Workflow: rRNA_selection.cwl

Fetched 2021-03-04 15:50:23 GMT
children parents
Workflow as SVG
  • Selected
  • Default Values
  • Nested Workflows
  • Tools
  • Inputs/Outputs

Inputs

ID Type Title Doc
indexed_sequences File [FASTA]
model File [HMMER format] rRNA protein model to search with

Steps

ID Runs Label Doc
extract_coord_lines
extract_coord_lines.cwl (CommandLineTool)
extract_coordinates
rRNA_selection.cwl#extract_coordinates/extract_coordinates (CommandLineTool)
fetch_aligned_sequences
esl-sfetch-manyseqs.cwl (CommandLineTool)
extract by names from an indexed sequence file

https://github.com/EddyRivasLab/easel

hmmsearch
hmmsearch.cwl (CommandLineTool)
search profile(s) against a sequence database

Outputs

ID Type Label Doc
matching_sequences File [FASTA]
hmmer_search_results File
Permalink: https://w3id.org/cwl/view/git/c1f8b22dc4da88c998cb00f4b2bebdff8c3632d7/tools/rRNA_selection.cwl