Ten recommendations for creating usable bioinformatics command line software

GigaScience

Volumn 2, Issue 1, 2013, Pages

  Seemann, Torsten ^a,b  

^a MONASH UNIVERSITY   (Australia)

^b Life Sciences Computation Centre   (Australia)

Author keywords

Bioinformatics software; Software quality; Tools; Unix; User interface

Indexed keywords

ALGORITHM; BIOINFORMATICS; BRAIN COMPUTER INTERFACE; COMPUTER PROGRAM; DATA ANALYSIS SOFTWARE; ERROR; NOTE; PRIORITY JOURNAL; VALIDATION PROCESS;

EID: 85006219382     PISSN: None     EISSN: 2047217X     Source Type: Journal    
DOI: 10.1186/2047-217X-2-15     Document Type: Note

References (7)

1. POSIX standards for command line interfaces. http://www.gnu.org/prep/standards/html_node/Command_002dLine-Interfaces.html.
2. Wikipedia: getopt. http://en.wikipedia.org/wiki/Getopt.
3. Galaxy tool shed. http://wiki.galaxyproject.org/Tool%20Shed.
4. GitHub. http://github.com.
5. Exit and exit status. http://tldp.org/LDP/abs/html/exit-status.html.
6. Perl core modules: FindBin. http://perldoc.perl.org/FindBin.html.
7. SAMtools. http://samtools.sourceforge.net.