.\" DO NOT MODIFY THIS FILE! It was generated by help2man 1.47.3. .TH ART_PROFILER_ILLUMINA "1" "February 2016" "art_profiler_illumina 3.19.15" "User Commands" .SH NAME art_profiler_illumina \- program for generating empirical 454 read profiles .SH DESCRIPTION This tool is to create an illumina read quality profile from multiple fastq or gzipped fastq files .SH USAGE .B art_profiler_illumina out_profile_name input_fastq_dir [fastq_filename_extension (default: fq)] .SH OPTIONS .TP out_profile_name: the name of read quality profile .TP input_fastq_dir: the directory of input fastq or zipped fastq files .IP fastq_filename_extension: fastq or gzipped fastq filename extension (default: fq) .SH EXAMPLES .TP 1) create hiseq2k profiles from all *.fq.gz in the directory fastq_dat_dir .IP art_profiler_illumina hiseq2k fastq_dat_dir fq.gz .TP 2) create miseq2500 profiles from all *.fq in the directory fastq_dat_dir .IP art_profiler_illumina miseq250 fastq_dat_dir fq .TP 3) create hiseq1k profiles from all *.fq in the directory fastq_dat_dir .IP art_profiler_illumina hiseq1k fastq_dat_dir .P 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 .SH AUTHOR This program was written by Weichun Huang .P This manpage was written by Andreas Tille for the Debian distribution and can be used for any other usage of the program.