Class: Bio::Ngs::Fastx::Trim
- Inherits:
-
Object
- Object
- Bio::Ngs::Fastx::Trim
- Includes:
- Command::Wrapper
- Defined in:
- lib/bio/appl/ngs/fastx.rb
Overview
- -f N
-
First base to keep. Default is 1 (=first base).
- -l N
-
Last base to keep. Default is entire read.
- -t N
-
Trim N nucleotides from the end of the read.
'-t' can not be used with '-l' and '-f'. - -z
-
Compress output with GZIP.
- -i INFILE
-
FASTA/Q input file. default is STDIN.
- -o OUTFILE
-
FASTA/Q output file. default is STDOUT.
Method Summary
Methods included from Command::Wrapper
#class_name, #default_options, included, #initialize, #normalize_params, #options, #options=, #output, #params, #params=, #path, #path=, #pipe_ahead, #pipe_ahead=, #pipe_ahead?, #program, #reset_params, #run, #sub_program, #thor_task, #to_cmd_ary, #use_aliases?