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- Input data type - This is the type of data the task can be performed on. In the Analyses tab, this is the type of data node that will be selected for to the task to appear in the context-sensitive Task menu. Partek Flow requires User added tasks to be performed on either: Unaligned reads, Aligned reads, Quantification, and Variants. Additional inputs can be specified in the Options step. The type of Input data selected from the drop-down menu will determine the additional fields that need to be defined. In Figure 7 the Subread Aligner task accepts Unaligned reads.
- Input from - choose Parameter if the input file(s) is specified using an option (e.g. -r) on the command line/executable or Last option if the executable assumes the input file(s) is placed at the end of the command
- Accepts paired-end - choose between Yes, No or Exclusively with respect to the task's behavior with paired-end reads
- Single-end parameter - enter the parameter to add before single-end reads
- 1st pair parameter - enter the parameter to add before the first file (_1) in a paired-end reads set
- 2nd pair parameter - enter the parameter to add before the first file (_2) in a paired-end reads set
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