mason_frag_sequencing(1) on Linux
The text 82e4fae95683, as Debian 9 (Stretch) shipped it.
Fragment Sequencing Simulation SYNOPSIS DESCRIPTION OPTIONS -h, --help --version-check BOOL --version -q, --quiet -v, --verbose -vv, --very-verbose --seed INTEGER -i, --in INPUT_FILE -o, --out OUTPUT_FILE -or, --out-right OUTPUT_FILE --force-single-end --seq-technology STRING --seq-mate-orientation STRING --seq-strands STRING --embed-read-info --read-name-prefix STRING --enable-bs-seq --bs-seq-protocol STRING --bs-seq-conversion-rate DOUBLE --illumina-read-length INTEGER --illumina-error-profile-file INPUT_FILE --illumina-prob-insert DOUBLE --illumina-prob-deletion DOUBLE --illumina-prob-mismatch-scale DOUBLE --illumina-prob-mismatch DOUBLE --illumina-prob-mismatch-begin DOUBLE --illumina-prob-mismatch-end DOUBLE --illumina-position-raise DOUBLE --illumina-quality-mean-begin DOUBLE --illumina-quality-mean-end DOUBLE --illumina-quality-stddev-begin DOUBLE --illumina-quality-stddev-end DOUBLE --illumina-mismatch-quality-mean-begin DOUBLE --illumina-mismatch-quality-mean-end DOUBLE --illumina-mismatch-quality-stddev-begin DOUBLE --illumina-mismatch-quality-stddev-end DOUBLE --illumina-left-template-fastq INPUT_FILE --illumina-right-template-fastq INPUT_FILE --sanger-read-length-model STRING --sanger-read-length-min INTEGER --sanger-read-length-max INTEGER --sanger-read-length-mean DOUBLE --sanger-read-length-error DOUBLE --sanger-prob-mismatch-scale DOUBLE --sanger-prob-mismatch-begin DOUBLE --sanger-prob-mismatch-end DOUBLE --sanger-prob-insertion-begin DOUBLE --sanger-prob-insertion-end DOUBLE --sanger-prob-deletion-begin DOUBLE --sanger-prob-deletion-end DOUBLE --sanger-quality-match-start-mean DOUBLE --sanger-quality-match-end-mean DOUBLE --sanger-quality-match-start-stddev DOUBLE --sanger-quality-match-end-stddev DOUBLE --sanger-quality-error-start-mean DOUBLE --sanger-quality-error-end-mean DOUBLE --sanger-quality-error-start-stddev DOUBLE --sanger-quality-error-end-stddev DOUBLE --454-read-length-model STRING --454-read-length-min INTEGER --454-read-length-max INTEGER --454-read-length-mean DOUBLE --454-read-length-stddev DOUBLE --454-no-sqrt-in-std-dev --454-proportionality-factor DOUBLE --454-background-noise-mean DOUBLE --454-background-noise-stddev DOUBLE SEQUENCING SIMULATION READ ORIENTATION VERSION