Perl tools

BioPerl Perl tools for bioinformatics, genomics and life sciences part of a wider bioinformatics open source initiative at http //www.open-bio.org http //bio. perl.org/... 

Arnon, Stephen S., Robert Schechter, Thomas V. Inglesby, Donald A. Henderson, John G. Bartlett, Michael S. Ascher, Edward Eitzen, Anne D. Fine, Jerome Hauer, Marcelle Layton, Scott Lil-libridge, Michael T. Osterholm, Tara O Toole, Gerald Parker, Trish M. Perl, Philip K. Russell,... 

Amon, S., Schecter, R., Ingleshy, T., Henderson, D., Bartlett, J., Ascher, M., Eitzen, E., Fine, A., Hauer, J., Layton, M., Lilli-bridge, S., Osterholm, M., O Toole, T., Parker, G., Perl, T., Russell, P., Swerdlow, D., Tonat, K. (2001). Botulinum toxin as a biological weapon. Medical and Public Health Management. JAMA 285 1059-70. 

Inglesby TV, Dennis DT, Henderson DA, Bartlett JG, Ascher MS, Eitzen E, Fine AD, Friedlander AM, Hauer J, Koerner IF, Layton M, McDade J, Osterholm MT, O Toole T, Parker G, Perl TM, Russell PK, Schoch-Spana M, Tonat K. Plague as a biological weapon medical and public health management. Working Group on Civilian Biodefense. JAMA 2000 283(17) 2281-90. 

Some pharmacometricians may be involved in complex software projects, such as the development of software for ADMET (absorption, distribution, metabolism, excretion, and toxicity) predictions or software tools that can be used by other scientists. Examples of such tools include Perl-speaks-NONMEM (14) or Xpose (15). Such tasks often require a diverse set of programming skills and strong programming practices. 

A Biopipe protocol represents a series of analyses. Each unit of analysis consists of specifications for input, analysis, and output. The input layer consists of a number of adaptors for various common database formats or for remote fetching from Web sources like GenBank. The role of the input layer is to retrieve data into a common format for a subsequent analysis. The complementary output layer contains adaptors to push the analysis result out to the desired database or format. The analysis layer functions through the action of wrapper Biopipe Perl modules that make standard Bioperl runnable binaries accessible to the Biopipe system. An explicit design goal of Biopipe is to reuse the encapsulations of binary tools, importers, and exporters that Bioperl already includes, with thin wrappers that specify the inputs that the input layer must provide in a workflow context. 

Pancreatic Cancer Methods and Protocols, edited by Gloria H Su, 2004 102 Autoimmunity Methods and Protocols, edited by Andros Perl, 2004 101 Cartilage and Osteoarthritis Volume 2, Structure and In Vivo Analysis, edited by Frederic De Ceuninck, Massimo Sabatini, and Philippe Pastoweau, 2004 100 Cartilage and Osteoarthritis Volume 1, Cellular and Molecular Tools, edited by Massimo Sabatini, Philippe Pastoweau, and Frederic De Ceuninck, 2004 99 Pain Research Methods and Protocols, edited by David Z. Luo, 2004 98 Tumor Necrosis Factor Methods and... 

Developing applications where the user interface appears in a web browser is an important new skill for programmers. The tools that enable a programmer to accomplish this type of development include HTML, Java, CGI, Perl, ColdFusion, ASP, etc.—a veritable cornucopia of new acronyms. This section explains these terms and shows how these new tools may be used to create web pages that behave more like traditional software applications. 

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