Workflow Demos

Return to all workflow demos

kegg.pl bioActor

Description

Alignment of query against KEGG database using blast program.

Execution Choices

  • HadoopMapOnly
  • LocalExecution
  • StratosphereMapOnly

Inputs

queryDirAn directory containing all protein sequence files as query.

Outputs

alignmentDirAn directory containing all alignment output files.

Parameters

evalueCutoffE-value cutoff.
noAlignmentNumber of database sequence to show alignments.
noDescriptionNumber of database sequence to show one-line descriptions.
programNameProgram used for alignment, e.g. blastp for protein alignment.
cleanupCmdClean up all files in alignment directory before running.
programThe command line program to execute.
checkOutputTimestampIf true, verify the last modification timestamp for each output file has increased after execution. If the timestamp has not increased, throw an error.
additionalOptionsAdditional command line options to run kegg.pl
ChoiceThe execution choice to run.

bioKepler is funded by NSF DBI-1062565 under CI Reuse and Advances in Bioinformatics programs. Any opinions, findings and conclusions or recomendations expressed in this material are those of the author(s) and do not necessarily reflect the views of the National Science Foundation (NSF).