tandem-mass_2013.09.01-2_i386.deb

X! Tandem can match tandem mass spectra with peptide sequences, in a process that is commonly used to perform protein identification. This software has a very simple, unsophisticated application programming interface (API): it simply takes an XML file of instructions on its command line, and outputs the results into an XML file, which has been specified in the input XML file. The output file format is described at \fI`http://www.thegpm.org/docs/X_series_output_form.pdf'\fR. Unlike some earlier generation search engines, all of the X! Series search engines calculate statistical confidence (expectation values) for all of the individual spectrum-to-sequence assignments. They also reassemble all of the peptide assignments in a data set onto the known protein sequences and assign the statistical confidence that this assembly and alignment is non-random. The formula for which can be found here. Therefore, separate assembly and statistical analysis software, e.g. PeptideProphet and ProteinProphet, do not need to be used.

2014-08-18 - Filippo Rusconi <lopippo@debian.org> tandem-mass (1:2013.09.01-2) unstable; urgency=medium * mv upstream upstream/metadata; * Bump up StandardsVersion to 3.9.5.

2013-11-22 - The Debichem Group <debichem-devel@lists.alioth.debian.org> tandem-mass (1:2013.09.01-1) unstable; urgency=low * Packaging of X!Tandem (SLEDGEHAMMER 2013.09.01, from http://www.thegpm.org/tandem/) for Debian GNU/Linux (Olivier Langella <Olivier.Langella@moulon.inra.fr>, with the great help of Filippo Rusconi <lopippo@debian.org>); * Upload by Filippo Rusconi <lopippo@debian.org>.

2013-08-29 - The Debichem Group <debichem-devel@lists.alioth.debian.org> tandem-mass (1:2013.06.15-1) unstable; urgency=low * quilt dependencies removed from rules. quilt is now used the modern way as decribed in http://pkg-perl.alioth.debian.org/howto/quilt.html * Packaging of X!Tandem (JACKHAMMER 2013.06.15, from http://www.thegpm.org/TANDEM/) for Debian GNU/Linux (Olivier Langella <Olivier.Langella@moulon.inra.fr>, with the great help of Filippo Rusconi <lopippo@debian.org>); * Upload by Filippo Rusconi <lopippo@debian.org>;

2013-06-07 - Filippo Rusconi <lopippo@debian.org> tandem-mass (1:2013.02.01.1-1) unstable; urgency=low * Packaging of X!Tandem (CYCLONE 2013.02.01.1, from http://www.thegpm.org/TANDEM/) for Debian GNU/Linux (Olivier Langella <olivier.langella@laposte.net>, with the great help of Filippo Rusconi <lopippo@debian.org>); * Added and tested debian/watch file (Filippo Rusconi); * Added debian/upstream file (Olivier Langella);

2013-01-16 - Filippo Rusconi <lopippo@debian.org> tandem-mass (20121001-2) unstable; urgency=low * Fix the target build-stamp by adding the $(QUILT_STAMPFN) dependency. This missing dependency seemingly caused problems in Ubuntu (as reported by Tim Gardner <tim.gardner@canonical.com>; Closes: #695553). Thanks Tim.

2012-11-14 - Filippo Rusconi <lopippo@debian.org> tandem-mass (20121001-1) unstable; urgency=low * Initial packaging of X!Tandem (CYCLONE 12-10-01-1, from http://www.thegpm.org/TANDEM/) for Debian GNU/Linux (in collaboration with Olivier Langella <olivier.langella@laposte.net>). (Closes: #693800).