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art_profiler_illumina - program for generating empirical 454 read profiles

ART_PROFILER_ILLUMINA(1) User Commands ART_PROFILER_ILLUMINA(1)

NAME

art_profiler_illumina - program for generating empirical 454 read profiles

DESCRIPTION

This tool is to create an illumina read quality profile from multiple fastq or gzipped fastq files

USAGE

art_profiler_illumina out_profile_name input_fastq_dir [fastq_filename_extension (default: fq)]

OPTIONS

out_profile_name:
the name of read quality profile
input_fastq_dir:
the directory of input fastq or zipped fastq files
fastq_filename_extension: fastq or gzipped fastq filename extension (default: fq)

EXAMPLES

1) create hiseq2k profiles from all *.fq.gz in the directory fastq_dat_dir
art_profiler_illumina hiseq2k fastq_dat_dir fq.gz
2) create miseq2500 profiles from all *.fq in the directory fastq_dat_dir
art_profiler_illumina miseq250 fastq_dat_dir fq
3) create hiseq1k profiles from all *.fq in the directory fastq_dat_dir
art_profiler_illumina hiseq1k fastq_dat_dir
NOTES: For paired-end fastq files, e.g., *.fq or *.fq.gz, the filenames of the 1st reads must be *_1.fq/*_1.fq.gz, or *.1.fq/*.1.fq.gz and those of the 2nd reads must be *_2.fq./*_2.fq.gz, or *.2.fq or *.2.fq.gz

AUTHOR

This program was written by Weichun Huang <whduke@gmail.com>
This manpage was written by Andreas Tille for the Debian distribution and can be used for any other usage of the program.
February 2016 art_profiler_illumina 3.19.15