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hmmsearch.pl bioActor

Description

hmmsearch alignment.

Execution Choices

  • HadoopMapOnly
  • LocalExecution
  • StratosphereMapOnly

Inputs

referenceNamehmmer formatted databases like PFAM/TIGRFAM.
queryDirAn directory containing all protein sequence files as query.

Outputs

alignmentDirAn directory containing all alignment output files.

Parameters

evalueCutoffE-value cutoff
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 hmmsearch.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).