Options:
-o|--outfile output-file
-O|--outdir output-dir
-b|--bufsize size of file-buffer dflt=1MB
-c|--curcache size of cursor-cache dflt=10MB
-m|--mem memory limit for sorting dflt=100MB
-t|--temp where to put temp. files dflt=curr dir
-e|--threads how many thread dflt=6
-p|--progress show progress
-x|--details print details
-s|--split-spot split spots into reads
-S|--split-files write reads into different files
-3|--split-3 writes single reads in special file
--concatenate-reads writes whole spots into one file
-Z|--stdout print output to stdout
-f|--force force to overwrite existing file(s)
-N|--rowid-as-name use row-id as name
--skip-technical skip technical reads
--include-technical include technical reads
-P|--print-read-nr print read-numbers
-M|--min-read-len filter by sequence-len
--table which seq-table to use in case of pacbio
--strict terminate on invalid read
-B|--bases filter by bases
-A|--append append to output-file
--fasta produce FASTA output
--fasta-unsorted produce FASTA output, unsorted
--seq-defline custom defline for sequence: $ac=accession,
$sn=spot-name, $sg=spot-group, $si=spot-id,
$ri=read-id, $rl=read-length
--qual-defline custom defline for qualities: same as
seq-defline
-U|--only-unaligned process only unaligned reads
-a|--only-aligned process only aligned reads
--ngc <PATH> PATH to ngc file
-h|--help Output brief explanation for the program.
-V|--version Display the version of the program then
quit.
-L|--log-level <level> Logging level as number or enum string. One
of (fatal|sys|int|err|warn|info|debug) or
(0-6) Current/default is warn
-v|--verbose Increase the verbosity of the program
status messages. Use multiple times for more
verbosity. Negates quiet.
-q|--quiet Turn off all status messages for the
program. Negated by verbose.
--option-file <file> Read more options and parameters from the
file.
srr="SRR17327096";
numLines=$(fastq-dump -X 1 -Z --split-spot $srr| wc -l);
if [$numLines-eq4];then;echo"$srr is single-end";else;echo"$srr is paired-end";fi
「Rによる機械学習[第3版]」は、
Brett Lantz, "Machine Learning with R - Third Edition”, Packt Publishing, 2019の邦訳版で、
「機械学習」で語られることの多い手法（最近傍法や回帰法、ナイーブベイズ
や決定木を使った分類法）を網羅しています。
