Versions Compared

Old Version 1

changes.mady.by.user Emilio Palumbo

Saved on

compared with

New Version 2

changes.mady.by.user Emilio Palumbo

Saved on

Key

  • This line was added.
  • This line was removed.
  • Formatting was changed.

...

Code Block
$ flux-capacitor --printParameters
Flux-Capacitor v1.0.3-SNAPSHOT (Flux Library: 1.15-SNAPSHOT)

# The annotation file
#
ANNOTATION_FILE    

#  Information from the read descriptor that will be used for annotation mapping
#
# [PAIRED, STRANDED, SINGLE, COMBINED] default: SINGLE
ANNOTATION_MAPPING    SINGLE

#...
Section

The remaining command line flags "-x", "-l", and "-s" are to specify which steps of the simulation pipeline described in the parameter file are to be carried out: simulated expression of a random transcriptome ("-x"), simulated library construction ("-l"), and/or simulated sequencing ("-s"). The next section introduces the pre-requirements, the algorithms, and the parameters for each pipeline step.