Package: beads Version: 1.1.15-1 Architecture: amd64 Maintainer: Olivier Langella Installed-Size: 4082 Depends: libc6 (>= 2.2.5), libgcc1 (>= 1:4.1.1), libqtcore4 (>= 4:4.5.3), libqtgui4 (>= 4:4.5.3), libstdc++6 (>= 4.4.0), libx11-6, imagemagick, libqt4-xml (>= 4.5.2), libqt4-svg (>= 4.5.2) Homepage: http://pappso.inra.fr/bioinfo/beads Priority: optional Section: science Filename: pool/main/b/beads/beads_1.1.15-1_amd64.deb Size: 1449360 SHA256: 8b86af9c26afc460931ea93b339fc4f77885b44bdc3648d118b4e532cfd759b4 SHA1: 6cbf281894163a8f428270b6e60725a475424b8a MD5sum: cf131e5d23bc6e75f6d88607a874b491 Description: 2-DE electrophoresis gel image spot detection 2-DE electrophoresis gel image spot detection Package: comet-mass Version: 2014.02.2-4 Architecture: amd64 Maintainer: Olivier Langella Installed-Size: 1994 Homepage: http://pappso.inra.fr/ Priority: optional Section: science Filename: pool/main/c/comet-mass/comet-mass_2014.02.2-4_amd64.deb Size: 834492 SHA256: fe7ea4b2cdaa1a422c6034ccd917efc7535d058bd5657c3be1931080cf8c85df SHA1: 03d22575308ca69c1203eb695903aaefc9327886 MD5sum: 1d4e11ea06ebc8e2f77f251a9404ebde Description: mass spectrometry software for protein identification Comet is an open source tandem mass spectrometry (MS/MS) sequence database search engine. It identifies peptides by searching MS/MS spectra against sequences present in protein sequence databases. . Comet currently exists as a simple Windows or Linux command line binary that only does MS/MS database search. Supported input formats are mzXML, mzML, and ms2 files. Supported output formats are .out, SQT, and pepXML . Documentation and project website: http://comet-ms.sourceforge.net Package: denovopipeline-ng Version: 0.1.1-6 Architecture: amd64 Maintainer: Olivier Langella Installed-Size: 161 Depends: python (>= 2.6.6-7~), python-biopython, pepnovo, pwiz-tools, tandem-mass Homepage: http://pappso.inra.fr/bioinfo/ Priority: optional Section: science Filename: pool/main/d/denovopipeline-ng/denovopipeline-ng_0.1.1-6_amd64.deb Size: 26022 SHA256: 83c7234e1895520421b386ac46253de2887f2f19063a9309e2eab1c959703d83 SHA1: 9f543d95833b628c90553066c3e7f1a8027461f8 MD5sum: ecbdd71c3e96a81b17f3b4adf0de8e9a Description: Denovo Pipeline next generation from PAPPSO Denovo Pipeline next generation from PAPPSO Package: fasta Version: 36.2.6-4 Architecture: amd64 Maintainer: Olivier Langella Installed-Size: 8291 Depends: libc6 (>= 2.7) Homepage: http://fasta.bioch.virginia.edu/fasta_www2/fasta_down.shtml Priority: optional Section: science Filename: pool/main/f/fasta/fasta_36.2.6-4_amd64.deb Size: 3968296 SHA256: 1d4c281291315f64cdaafdb21e128214aba5bc4778de14cb9bd1823403add0d7 SHA1: b5f48e61153e1cee34c6b44008548aaad2005543 MD5sum: 635d2eb1fa9ec84e84f4897742a6cbc9 Description: look for similarities in DNA or protein sequences Compares a protein sequence to another protein sequence or to a protein database, or a DNA sequence to another DNA sequence or a DNA library. Original-Maintainer: Olivier Langella Package: fastamanager Version: 2.0.1-3 Architecture: all Maintainer: Olivier Langella Installed-Size: 229 Depends: openjdk-6-jre (>= 1.6), liblog4j1.2-java (>= 1.2.15), libcommons-httpclient-java (>= 3.1), libcommons-codec-java (>= 1.4), libcommons-logging-java (>= 1.1.1) Homepage: http://pappso.inra.fr/ Priority: optional Section: science Filename: pool/main/f/fastamanager/fastamanager_2.0.1-3_all.deb Size: 167104 SHA256: 4b75ba11f3a62546ce93e09629a7d2825a0ed6e36de79979dfde8206d9d00ca1 SHA1: 204afc4eafdba0f4b14ed870b71ac8c16018f64f MD5sum: d775d8aa066701fb706f62cf59e1f455 Description: helps to manage a Fasta file collection helps to manage a Fasta file collection Package: grouping-protein Version: 0.2.1-10 Architecture: amd64 Maintainer: Olivier Langella Installed-Size: 350 Depends: libc6 (>= 2.2.5), libgcc1 (>= 1:4.1.1), libqt4-network (>= 4:4.5.3), libqt4-xml (>= 4:4.5.3), libqt4-xmlpatterns (>= 4:4.5.3), libqtcore4 (>= 4:4.8.0), libqtgui4 (>= 4:4.5.3), libstdc++6 (>= 4.6), python, denovopipeline-ng Homepage: http://pappso.inra.fr/bioinfo/gp/ Priority: optional Section: science Filename: pool/main/g/grouping-protein/grouping-protein_0.2.1-10_amd64.deb Size: 112144 SHA256: aab03a173846b72ec1d991c9dde029fb39d205981f01c4ff8e45969a65f1b4a8 SHA1: 4b67131bc84c4c9484de56de7dba86eb3c481fc8 MD5sum: 9cc67d1df1430fe494faff3c2929d6a5 Description: Proteomics grouping algorithm Grouping-protein implements a fast algorithm that can filter thousands of peptides Package: libodsstream-dev Source: libodsstream Version: 0.0.1-1 Architecture: amd64 Maintainer: Olivier Langella Installed-Size: 618 Depends: libodsstream0 (= 0.0.1-1), libquazip-dev Multi-Arch: same Homepage: http://pappso.inra.fr/bioinfo Priority: optional Section: libdevel Filename: pool/main/libo/libodsstream/libodsstream-dev_0.0.1-1_amd64.deb Size: 145792 SHA256: 95fb41b635cdd74200aa9390b4d60fcc6779229e757cfcfea0667d8a7931ec4f SHA1: fd0c919116f1d18bc913bd768fed5edd07a5ff56 MD5sum: 9733bd3846d7dd37e89cd1a45df7a4c6 Description: C++ library to read or write ODS files libodsstream provides a simple way to read and write Open Document Spreadsheet files using streams only to be memory efficient. Package: libodsstream0 Source: libodsstream Version: 0.0.1-1 Architecture: amd64 Maintainer: Olivier Langella Installed-Size: 25 Multi-Arch: same Homepage: http://pappso.inra.fr/bioinfo Priority: optional Section: libs Filename: pool/main/libo/libodsstream/libodsstream0_0.0.1-1_amd64.deb Size: 1336 SHA256: 1508d2df91c58abe48b5b0202eea273cfb5ac1beb6f78af9a04c3ff7b86686c5 SHA1: 2285fef608a2d68d6d72cba8595ef6edf359215c MD5sum: a40c04ee245348e7aaa9093daa527260 Description: C++ library to read or write ODS files libodsstream provides a simple way to read and write Open Document Spreadsheet files using streams only to be memory efficient. Package: libquazip-doc Source: libquazip Version: 0.5.1-2~wheezy+1 Architecture: all Maintainer: Debian Med Packaging Team Installed-Size: 716 Multi-Arch: foreign Homepage: https://sourceforge.net/projects/quazip/ Priority: optional Section: doc Filename: pool/main/libq/libquazip/libquazip-doc_0.5.1-2~wheezy+1_all.deb Size: 202228 SHA256: f933f047edf1185d9a62a584bd611da32e0f1a85b7e1e7f0e97c6a6e350b7759 SHA1: 22dd8f365f8d2b8e68680e55e712896e4cd36af4 MD5sum: 57835efe72bf95b0926bcabce3f829f9 Description: C++ wrapper for ZIP/UNZIP (documentation) QuaZIP is a simple C++ wrapper over Gilles Vollant's ZIP/UNZIP package that can be used to access ZIP archives. It uses Trolltech's Qt toolkit. . QuaZIP allows you to access files inside ZIP archives using QIODevice API, and that means that you can also use QTextStream, QDataStream or whatever you would like to use on your zipped files. . QuaZIP provides complete abstraction of the ZIP/UNZIP API, for both reading from and writing to ZIP archives. . This package contains the API documentation in HTML. Package: libquazip0 Source: libquazip Version: 0.5.1-2~wheezy+1 Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 205 Pre-Depends: multiarch-support Depends: libc6 (>= 2.4), libgcc1 (>= 1:4.1.1), libqtcore4 (>= 4:4.7.4), libstdc++6 (>= 4.1.1), zlib1g (>= 1:1.1.4) Suggests: libquazip-doc Multi-Arch: same Homepage: https://sourceforge.net/projects/quazip/ Priority: optional Section: libs Filename: pool/main/libq/libquazip/libquazip0_0.5.1-2~wheezy+1_amd64.deb Size: 68558 SHA256: e43e53b3c722705ab53c0bbde749767f8d56fe38b4e7e5a0bb65effa66d82030 SHA1: 402864858dcab9e3d0fc8a2c4977a6d2085dbd9e MD5sum: 68d66b341fc714894c01054ae50bcbcd Description: C++ wrapper wrapper for ZIP/UNZIP QuaZIP is a simple C++ wrapper over Gilles Vollant's ZIP/UNZIP package that can be used to access ZIP archives. It uses Trolltech's Qt toolkit. . QuaZIP allows you to access files inside ZIP archives using QIODevice API, and that means that you can also use QTextStream, QDataStream or whatever you would like to use on your zipped files. . QuaZIP provides complete abstraction of the ZIP/UNZIP API, for both reading from and writing to ZIP archives. Package: libquazip0-dbg Source: libquazip Version: 0.5.1-2~wheezy+1 Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 593 Depends: libquazip0 (= 0.5.1-2~wheezy+1) Multi-Arch: same Homepage: https://sourceforge.net/projects/quazip/ Priority: extra Section: debug Filename: pool/main/libq/libquazip/libquazip0-dbg_0.5.1-2~wheezy+1_amd64.deb Size: 539108 SHA256: 8335e59ed54905ae6bf45511937da8098c1cb163aed165f16a6a1e4345108058 SHA1: 60349f6bbb780b5e9eb6221b912a602b8056620c MD5sum: f358d24365df555bc78078de1f8f9fea Description: debugging symbols for libquazip QuaZIP is a simple C++ wrapper over Gilles Vollant's ZIP/UNZIP package that can be used to access ZIP archives. It uses Trolltech's Qt toolkit. . QuaZIP allows you to access files inside ZIP archives using QIODevice API, and that means that you can also use QTextStream, QDataStream or whatever you would like to use on your zipped files. . QuaZIP provides complete abstraction of the ZIP/UNZIP API, for both reading from and writing to ZIP archives. . This package contains the debugging symbols for Qt Creator IDE. Package: libquazip0-dev Source: libquazip Version: 0.5.1-2~wheezy+1 Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 403 Depends: libquazip0 (= 0.5.1-2~wheezy+1), zlib1g-dev Conflicts: libquazip-dev Provides: libquazip-dev Multi-Arch: same Homepage: https://sourceforge.net/projects/quazip/ Priority: optional Section: libdevel Filename: pool/main/libq/libquazip/libquazip0-dev_0.5.1-2~wheezy+1_amd64.deb Size: 103808 SHA256: b13678fedbf198cdf1fdd15b0e8011d2fee16172b28cff8e5f57bd9307f2eb99 SHA1: 7462731ebaae0236ac079c5f180e964a4e8b0385 MD5sum: 1281adc83a079ea7cf642e81be298547 Description: C++ wrapper wrapper for ZIP/UNZIP (development files) QuaZIP is a simple C++ wrapper over Gilles Vollant's ZIP/UNZIP package that can be used to access ZIP archives. It uses Trolltech's Qt toolkit. . QuaZIP allows you to access files inside ZIP archives using QIODevice API, and that means that you can also use QTextStream, QDataStream or whatever you would like to use on your zipped files. . QuaZIP provides complete abstraction of the ZIP/UNZIP API, for both reading from and writing to ZIP archives. . This package contains the development files. Package: live-build Version: 3.0.5-1~wheezy+1 Architecture: all Maintainer: Debian Live Project Installed-Size: 881 Depends: debootstrap | cdebootstrap | cdebootstrap-static Recommends: live-boot-doc, live-config-doc, live-manual-html | live-manual, cpio, gnu-fdisk Suggests: dosfstools, debian-keyring, xorriso, git, gpgv, loadlin, memtest86+ | memtest86, mtools, parted, squashfs-tools | mtd-tools, sudo | fakeroot, syslinux | grub, uuid-runtime, win32-loader Homepage: http://live.debian.net/devel/live-build/ Priority: optional Section: misc Filename: pool/main/l/live-build/live-build_3.0.5-1~wheezy+1_all.deb Size: 215348 SHA256: bf5b22ee074ec35e98df588ca6d2f02e8d542a8d680139f627447c2249845c0c SHA1: 92a7fdf22ac3004e0a0195a61d2e0a877ba7459d MD5sum: 563e9c11acc00ca52eaca2fe83996d63 Description: Live System Build Scripts live-build contains the scripts to build a live system from a configuration directory. Package: live-build-cgi Source: live-build Version: 3.0.5-1~wheezy+1 Architecture: all Maintainer: Debian Live Project Installed-Size: 123 Depends: live-build (= 3.0.5-1~wheezy+1) Recommends: apache2 | httpd, cron Homepage: http://live.debian.net/devel/live-build/ Priority: optional Section: misc Filename: pool/main/l/live-build/live-build-cgi_3.0.5-1~wheezy+1_all.deb Size: 77292 SHA256: cc07d7fafa6210200d97d871ad5d160ccdc21067adc78daea8d42d6484778407 SHA1: 84d8d29c4a01ed617e34e0a2b5d9c05843fbf306 MD5sum: 62ad7a1b26748132300544d690aa90b6 Description: Live System Build Scripts (CGI frontend) live-build contains the scripts to build a live system from a configuration directory. . This package contains the CGI frontend (experimental!). Package: masschroq Version: 2.1.2-1 Architecture: amd64 Maintainer: Olivier Langella Installed-Size: 54 Depends: libc6 (>= 2.2.5), libgcc1 (>= 1:4.1.1), libqt4-network (>= 4:4.5.3), libqt4-xml (>= 4:4.5.3), libqt4-xmlpatterns (>= 4:4.5.3), libqtcore4 (>= 4:4.8.0), libqtgui4 (>= 4:4.5.3), libstdc++6 (>= 4.1.1), masschroq-common (= 2.1.2-1) Suggests: masschroq-doc, masschroq-gui, masschroq-studio Homepage: http://pappso.inra.fr/bioinfo/masschroq/ Priority: optional Section: science Filename: pool/main/m/masschroq/masschroq_2.1.2-1_amd64.deb Size: 12728 SHA256: dda4bc4751d59dd4e28978b0361da120db68ccf431fbe2ff099d4d76abc020e3 SHA1: b7d44c518104d65e2fdd2475b082aee2915f553b MD5sum: 2c76d96e0b18b1aa76b89753496dfa46 Description: Mass Chromatogram Quantification CLI (Command Line Interface) MassChroQ (Mass Chromatogram Quantification) software performs quantification of data obtained from LC-MS (Liquid Chromatography - Mass Spectrometry) techniques. In particular it performs : retention-time alignment of runs, XIC extraction and filtering, peak detection and quantification. Package: masschroq-common Source: masschroq Version: 2.1.2-1 Architecture: amd64 Maintainer: Olivier Langella Installed-Size: 1068 Depends: libc6 (>= 2.2.5), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.6), libqtcore4 (>= 4.6.3) Suggests: masschroq, masschroq-gui, masschroq-studio Conflicts: masschroq (<< 1.5.0) Replaces: masschroq (<< 1.5.0) Homepage: http://pappso.inra.fr/bioinfo/masschroq/ Priority: optional Section: science Filename: pool/main/m/masschroq/masschroq-common_2.1.2-1_amd64.deb Size: 365998 SHA256: b9178deef6cc970fc925e6fcbadabc5389de6931b3928182874bacd351fe64c6 SHA1: 21e5e6bd471a101eaa33aed847a501f52fc91228 MD5sum: b09d4f71c38685b739c04f691b3a6934 Description: Mass Chromatogram Quantification shared libraries MassChroQ (Mass Chromatogram Quantification) software performs quantification of data obtained from LC-MS (Liquid Chromatography - Mass Spectrometry) techniques. In particular it performs : retention-time alignment of runs, XIC extraction and filtering, peak detection and quantification. Package: masschroq-condor Source: masschroq Version: 2.1.2-1 Architecture: all Maintainer: Olivier Langella Installed-Size: 39 Depends: masschroq, condor Suggests: masschroq-doc, masschroq-gui, masschroq-studio Homepage: http://pappso.inra.fr/bioinfo/masschroq/ Priority: optional Section: science Filename: pool/main/m/masschroq/masschroq-condor_2.1.2-1_all.deb Size: 7956 SHA256: ef70d035cb314f048064e4e63d3b7fd828ef18a028b7398633db2c031d738d63 SHA1: 351a9f3c473e962fc24a011edc634ca771463760 MD5sum: a388d2856be007047bea2c7b6c285ecc Description: Perl script to launch MassChroQ via condor job queue Perl script to launch MassChroQ via condor job queue Package: masschroq-doc Source: masschroq Version: 2.1.2-1 Architecture: all Maintainer: Olivier Langella Installed-Size: 534 Suggests: masschroq, masschroq-gui, masschroq-studio Homepage: http://pappso.inra.fr/bioinfo/masschroq/ Priority: optional Section: science Filename: pool/main/m/masschroq/masschroq-doc_2.1.2-1_all.deb Size: 517680 SHA256: 91577f6e5fc000a40d78f43468767c184b088e9bd8b3d7b5a81804b3102e5bb9 SHA1: 6e32d8f9c9128eff3c2fc87b03087dd353e715c4 MD5sum: 3d1c731cd072d368aeba6b1d01417811 Description: Mass Chromatogram Quantification documentation Installs PDF documentation for MassChroQ in /usr/share/doc/masschroq Package: masschroq-gui Source: masschroq Version: 2.1.2-1 Architecture: amd64 Maintainer: Olivier Langella Installed-Size: 108 Depends: libc6 (>= 2.2.5), libgcc1 (>= 1:4.1.1), libqt4-network (>= 4:4.5.3), libqt4-xml (>= 4:4.5.3), libqt4-xmlpatterns (>= 4:4.5.3), libqtcore4 (>= 4:4.5.3), libqtgui4 (>= 4:4.5.3), libqwt5-qt4, libstdc++6 (>= 4.1.1), masschroq-common (= 2.1.2-1) Suggests: masschroq-doc, masschroq-studio Homepage: http://pappso.inra.fr/bioinfo/masschroq/ Priority: optional Section: science Filename: pool/main/m/masschroq/masschroq-gui_2.1.2-1_amd64.deb Size: 32762 SHA256: 2bfd957860f80224458eaa0f868b0998a22e525a573f86c9337e5caca5fa3271 SHA1: 34e75e348f75ebc4900cc58c9ff18cd5b12ea11f MD5sum: 34ff1f07af9af8b3b3a9984e1494a467 Description: Mass Chromatogram Quantification graphical user interface MassChroQ (Mass Chromatogram Quantification) software performs quantification of data obtained from LC-MS (Liquid Chromatography - Mass Spectrometry) techniques. In particular it performs : retention-time alignment of runs, XIC extraction and filtering, peak detection and quantification. Package: masschroq-studio Source: masschroq Version: 2.1.2-1 Architecture: amd64 Maintainer: Olivier Langella Installed-Size: 388 Depends: libc6 (>= 2.2.5), libgcc1 (>= 1:4.1.1), libqt4-network (>= 4:4.5.3), libqt4-xml (>= 4:4.5.3), libqt4-xmlpatterns (>= 4:4.5.3), libqtcore4 (>= 4:4.6.1), libqtgui4 (>= 4:4.5.3), libqwt5-qt4 (>= 5.2.0), libstdc++6 (>= 4.6), masschroq-common (= 2.1.2-1) Suggests: masschroq-doc, masschroq-gui Homepage: http://pappso.inra.fr/bioinfo/masschroq/ Priority: optional Section: science Filename: pool/main/m/masschroq/masschroq-studio_2.1.2-1_amd64.deb Size: 132184 SHA256: dc4a8044cdd769e6a12b7317a6f245ef7ee78902957d0d75bf4272eab7bc347a SHA1: 8a69c530f6063ae7b849d1aed149c2a1ad1b3648 MD5sum: 0d04d22b2aeb03e64be0e1f02e70c035 Description: Mass Chromatogram Quantification graphical user interface to edit parameters MassChroQ (Mass Chromatogram Quantification) software performs quantification of data obtained from LC-MS (Liquid Chromatography - Mass Spectrometry) techniques. In particular it performs : retention-time alignment of runs, XIC extraction and filtering, peak detection and quantification. Package: mzmine Version: 2.12-2 Architecture: all Maintainer: Olivier Langella Installed-Size: 75177 Depends: openjdk-6-jre (>= 1.6) | openjdk-7-jre (>= 1.7), libjfreechart-java, r-cran-rjava, libjama-java, libgnujaf-java, libautomaton-java, libaxis-java, libbcprov-java, libantlr-java, libcommons-io-java, libcommons-logging-java, liblog4j1.2-java, libcommons-cli-java, libcommons-codec-java, libcommons-collections3-java, libcommons-compress-java, libcommons-discovery-java, libcommons-httpclient-java, libcommons-math-java, libjargs-java, cup, javahelp2, libjgrapht0.6-java, libjsr305-java, libmysql-java, libslf4j-java, libstax-java, libstax2-api-java, libvecmath-java, libwsdl4j-java, libxalan2-java, libxerces2-java, libxom-java, libxpp3-java Homepage: http://mzmine.sourceforge.net/ Priority: optional Section: science Filename: pool/main/m/mzmine/mzmine_2.12-2_all.deb Size: 70939638 SHA256: 7018bb73e9893a2a84ecf7f0e83677cb0ebf69c74abe9cce1719751ed1da3dc9 SHA1: 5baf4763dd31982658452fc2f619ec3633b5b356 MD5sum: ab22df80fa5542843c539d0d82689713 Description: mass-spectrometry data processing MZmine 2 is an open-source project delivering a software for mass-spectrometry data processing, with the main focus on LC-MS data. It is based on the original MZmine toolbox described in 2006 Bioinformatics publication, but has been completely redesigned and rewritten since then. Our main goal is to provide a user-friendly, flexible and easily extendable framework with a complete set of modules covering the entire LC-MS data analysis workflow. Package: pepnovo Version: 3.1.2010225-5 Architecture: amd64 Maintainer: Olivier Langella Installed-Size: 20579 Depends: libc6 (>= 2.2.5), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.4.0) Homepage: http://proteomics.ucsd.edu/Software/PepNovo.html Priority: optional Section: science Filename: pool/main/p/pepnovo/pepnovo_3.1.2010225-5_amd64.deb Size: 6906180 SHA256: 5147a70abe83f6d7b4cd7338ebefb1fbe9f77956d6974d6258507a6ac1ebe395 SHA1: 1779679c5de615787a0297111cc3d6757c507251 MD5sum: db21d21713b8a13310a47f7bb310ae9b Description: denovo protein identification denovo protein identification Original-Maintainer: Olivier Langella Package: pepnovopipeline Version: 1.5.1-2 Architecture: amd64 Maintainer: Olivier Langella Installed-Size: 516 Depends: icedtea-netx, openjdk-6-jre (>= 1.6), pepnovo, libbatik-java (>= 1.7), fasta Homepage: http://pappso.inra.fr/ Priority: optional Section: science Filename: pool/main/p/pepnovopipeline/pepnovopipeline_1.5.1-2_amd64.deb Size: 433256 SHA256: fd07536d077eeab18c1a2011aa41ceb8894ea0be163c48891829f41158df4780 SHA1: e1d47b2b526d3a69f1829586bb8718d3f9089f7d MD5sum: 869604be83476af888e1943d6ab80142 Description: GUI for MS identification by de novo interpretation This Java application perform identification by de novo interpretation on data collected from ion trap mass spectrometers. It performs automated analysis by connection of two applications : PepNovo : automated interpretation of MS/MS spectra in a possible peptide sequence, Fasts : homology search in an iterative mode, to identify proteins from peptides sequences. Package: r-cran-plotrix Version: 3.4-7-1~wheezy+1 Architecture: all Maintainer: Debian Science Team Installed-Size: 692 Depends: r-base-core (>= 3.0.1-3~wheezycran3.0) Homepage: http://cran.r-project.org/web/packages/plotrix/ Priority: optional Section: gnu-r Filename: pool/main/r/r-cran-plotrix/r-cran-plotrix_3.4-7-1~wheezy+1_all.deb Size: 599082 SHA256: a83a0edd6657a17772f7ab02aa9880c50c34b76ce807791b7f7e603cf6881bce SHA1: c42ae642e742d84c9b1d630243ea45b1feec66d4 MD5sum: c7fbe9fa999408965107122f20239a94 Description: GNU R package providing various plotting functions This R package provides lots of plots, various labeling, axis and color scaling functions. Some of them are: . arctext: Display text on a circular arc. barhier: Display a set of hierarchically associated variables barp: A bar plotting routine bin.wind.records: Classify wind direction and speed records. centipede.plot: Display a centipede plot clock24.plot: Plot values on a 24 hour "clockface". color.legend: Legend matching categories or values to colors dotplot.mtb: Minitab style dotplots. gantt.chart: Display a Gantt chart intersectDiagram: Display set intersections multhist: Plot a multiple histogram, as a barplot polar.plot: Plot values on a circular grid of 0 to 360 degrees. vectorField: Display magnitude/direction vectors weighted.hist: Display a weighted histogram . and many more. Read more about this package at http://cran.r-project.org/web/packages/plotrix/plotrix.pdf Package: tandem-mass Version: 1:2013.09.01-1~wheezy+1 Architecture: amd64 Maintainer: The Debichem Group Installed-Size: 572 Depends: libc6 (>= 2.7), libexpat1 (>= 2.0.1), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.4.0) Homepage: http://www.thegpm.org/TANDEM/ Priority: optional Section: science Filename: pool/main/t/tandem-mass/tandem-mass_2013.09.01-1~wheezy+1_amd64.deb Size: 237066 SHA256: 2d8c3898992e988bfb8e5a2b87805323fce221fe7db1eec08e3dc155371b4c6b SHA1: 8cf841650c57d6ce8b9084cfc409b783d40ab84a MD5sum: 2238dad17c89c9296fe57733bb68c34f Description: mass spectrometry software for protein identification 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. Package: task-pappso-base Version: 0.1 Architecture: amd64 Maintainer: Olivier Langella Installed-Size: 26 Depends: linux-image-3.13-0.bpo.1-amd64, firmware-linux, firmware-linux-nonfree Homepage: http://pappso.inra.fr/bioinfo Priority: optional Section: misc Filename: pool/main/t/task-pappso-base/task-pappso-base_0.1_amd64.deb Size: 2162 SHA256: db2203f493afcdac96f8e782244a1a7eabadb8b334f1fd9c14a7cbfea7efeb0e SHA1: 3a0e37b9492e077adb606c8c8fb00f0d932282b1 MD5sum: 4936ceeeae2c3300b0331b10babb75ad Description: install recent linux kernel coming from the debian backports install recent linux kernel coming from the debian backports Package: task-pappso-desktop Version: 0.2 Architecture: all Maintainer: Olivier Langella Installed-Size: 27 Depends: cups, icedove, icedove-l10n-fr, iceweasel, iceweasel-l10n-fr, ttf-mscorefonts-installer, cups-pdf, software-center, libreoffice-l10n-fr (>= 4.1.4), libreoffice-help-fr (>= 4.1.4), libreoffice (>= 4.1.4), kde-runtime, libokularcore1, okular, phonon Homepage: http://pappso.inra.fr/bioinfo Priority: optional Section: misc Filename: pool/main/t/task-pappso-desktop/task-pappso-desktop_0.2_all.deb Size: 2322 SHA256: 625e3b5f2f82e8d18ae58880a289118c31aaee5157edc97beff9db59c5e2c779 SHA1: 2cb76fa65af0326cd457e2de5e5d8c8f34b03de3 MD5sum: be6d1d8afc5c62999ae9f750088b14be Description: minimum set of softwares for a desktop use minimum set of softwares for a desktop use in the PAPPSO team Package: task-pappso-tools Version: 0.3 Architecture: all Maintainer: Olivier Langella Installed-Size: 27 Depends: pwiz-tools, fastamanager, beads, masschroq-gui, masschroq-studio, masschroq-doc, xtandempipeline, openms, topp, grouping-protein, pepnovopipeline, denovopipeline-ng, xtandempipeline-doc, massxpert, mmass Homepage: http://pappso.inra.fr/bioinfo Priority: optional Section: misc Filename: pool/main/t/task-pappso-tools/task-pappso-tools_0.3_all.deb Size: 2330 SHA256: dfccbd272381f230a29850f6958d95cf1d564efcd027242d26874e2d9efbb5b9 SHA1: a490840d5d528aac044912371dfd00fe772f85b4 MD5sum: 53095ebca485c9ae209de0c522b12a65 Description: install proteomic software used on PAPPSO install proteomic software used on PAPPSO Package: xtandempipeline Version: 3.3.4-8 Architecture: all Maintainer: Olivier Langella Installed-Size: 3091 Depends: libswt-cairo-gtk-3-jni, icedtea-netx, openjdk-6-jre (>= 1.6) | openjdk-7-jre (>= 1.7), libswt-gtk-3.5-java | libswt-gtk-3.6-java | libswt-gtk-3-java, libbatik-java (>= 1.7), libswt-mozilla-gtk-3.5-jni | libswt-webkit-gtk-3.6-jni | libswt-webkit-gtk-3-jni, tandem-mass, liblog4j1.2-java (>= 1.2.15), libcommons-httpclient-java (>= 3.1), libcommons-codec-java (>= 1.4), libcommons-logging-java (>= 1.1.1) Conflicts: xtandem-cyclone, xtandemparser (<< 2.9.8-2~) Replaces: xtandemparser (<< 2.9.8-2~) Homepage: http://pappso.inra.fr/ Priority: optional Section: science Filename: pool/main/x/xtandempipeline/xtandempipeline_3.3.4-8_all.deb Size: 2734504 SHA256: 316e8755305f296a3cf1be550d1a681da37917d63f3718071ff7b0dea79e154e SHA1: b315de228f1d41e691e106264ee114e23b94d3b0 MD5sum: 3877bea94e028c765ec63421368527fc Description: loads and parses the xml results product by X!Tandem This Java application loads and parses the xml results product by X!Tandem, applies filters on E-value at peptide and protein levels, filters proteins on the basis of a minimum number of unique peptides, removes proteins specified in a contaminant database... Package: xtandempipeline-doc Source: xtandempipeline Version: 3.3.4-8 Architecture: all Maintainer: Olivier Langella Installed-Size: 2424 Suggests: xtandempipeline Homepage: http://pappso.inra.fr/ Priority: optional Section: science Filename: pool/main/x/xtandempipeline/xtandempipeline-doc_3.3.4-8_all.deb Size: 2454554 SHA256: 7226f012dfa089d9f4d4ab473b948f9372c68b6c25eee4d810468808580f3edf SHA1: 0ccd61595b4a6f44de80bd64cf5a874bdcf26151 MD5sum: c60de8e6dc09842576b8f93eb045dec6 Description: X!TandemPipeline documentation Installs PDF documentation for X!TandemPipeline in /usr/share/doc/xtandempipeline-doc