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tophat bioActor


Alignment of RNA-seq reads to reference database with annotations.


dnaSequenceFileDNA sequence file in FASTA format.
refGtfFileReference annotation file in GTF format.
referencePrefixThe prefix of formatted reference database.


bamFileno description


outputDirThe directory containing all output files.
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 tophat
ChoiceThe execution choice to run.