Package: beads Version: 1.1.16-2 Architecture: amd64 Maintainer: Olivier Langella Installed-Size: 1223 Depends: libc6 (>= 2.14), libgcc1 (>= 1:4.1.1), libice6 (>= 1:1.0.0), libjpeg62-turbo (>= 1.3.1), libodsstream-qt4, libpng12-0 (>= 1.2.13-4), libqt4-xml (>= 4:4.5.3), libqtcore4 (>= 4:4.5.3), libqtgui4 (>= 4:4.5.3), libsm6, libstdc++6 (>= 4.9), libtiff5 (>= 4.0.3), libx11-6, libxext6, libxrandr2, zlib1g (>= 1:1.1.4) Homepage: http://pappso.inra.fr/bioinfo/beads Priority: optional Section: science Filename: pool/main/b/beads/beads_1.1.16-2_amd64.deb Size: 330836 SHA256: 1e229115a5c51d15600b24c58ffd2b614b177ae2b2340776ac20c85da5361c23 SHA1: 47f16a3d777374af1100df7b25885a20b71c472e MD5sum: 02c3a2e6a15c322d907d701db1407c9d Description: 2-DE electrophoresis gel image spot detection 2-DE electrophoresis gel image spot detection Package: denovopipeline-ng Version: 0.1.1-11 Architecture: amd64 Maintainer: Olivier Langella Installed-Size: 161 Depends: python:any (>= 2.6.6-7~), python-biopython, pepnovo, libpwiz-tools, tandem-mass Conflicts: pwiz-tools (<= 3.0.4625) Homepage: http://pappso.inra.fr/bioinfo/ Priority: optional Section: science Filename: pool/main/d/denovopipeline-ng/denovopipeline-ng_0.1.1-11_amd64.deb Size: 23812 SHA256: 0deaf21dbb7925a6e86a18e9ee2f4201b3c6af5e511c0c5f497ae379c30d8507 SHA1: 5e5b2a049e9419ce54a536f460624ba6a1b99e4d MD5sum: 9c70c04f96a8356f9fd613ea9366e130 Description: Denovo Pipeline next generation from PAPPSO Denovo Pipeline next generation from PAPPSO Package: fasta Version: 36.2.6-5 Architecture: amd64 Maintainer: Olivier Langella Installed-Size: 8388 Depends: libc6 (>= 2.14) Homepage: http://fasta.bioch.virginia.edu/fasta_www2/fasta_down.shtml Priority: optional Section: science Filename: pool/main/f/fasta/fasta_36.2.6-5_amd64.deb Size: 645682 SHA256: ead380089d1a77c3c9a12382c270a14cc96ccd6181784ec2552740d9bcf7b07c SHA1: 1f811dd8cea14abc29342eff7d282909cc89e906 MD5sum: b5dd4761865552153f4e6401c85c8deb 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: 2.0.1-5 Architecture: all Maintainer: Olivier Langella Installed-Size: 230 Depends: openjdk-6-jre (>= 1.6) | openjdk-7-jre (>= 1.7), 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_2.0.1-5_all.deb Size: 164538 SHA256: 85668f6c279ab69eb769283f11e8953ebdeb916f0080134f4216fed324fc81bb SHA1: 7a7e032d840e4121d08b1df0ea036642a3253f3d MD5sum: e57cce801553b43404d29b10547053c7 Description: helps to manage a Fasta file collection helps to manage a Fasta file collection Package: grouping-protein Version: 0.4.3-1~jessie Architecture: amd64 Maintainer: Olivier Langella Installed-Size: 339 Depends: libc6 (>= 2.14), libgcc1 (>= 1:4.1.1), libpappsomspp-qt4 (= 0.2.35-1), 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, python:any (>= 2.7.5-5~), denovopipeline-ng Homepage: http://pappso.inra.fr/bioinfo Priority: optional Section: science Filename: pool/main/g/grouping-protein/grouping-protein_0.4.3-1~jessie_amd64.deb Size: 84690 SHA256: ed36f0ea4b1918b044128e6dfa9a16c124b09c672790f0743d77beadc000cc97 SHA1: 8177314c634886e234c3cda54ad6a6418a23bd6f MD5sum: 1708fbfabb67c88625f8c039131272a0 Description: Proteomics grouping algorithm Grouping-protein implements a fast algorithm that can filter thousands of peptides Package: grouping-protein-dbgsym Source: grouping-protein Version: 0.4.3-1~jessie Architecture: amd64 Maintainer: Olivier Langella Installed-Size: 27 Multi-Arch: same Homepage: http://pappso.inra.fr/bioinfo Priority: extra Section: debug Filename: pool/main/g/grouping-protein/grouping-protein-dbgsym_0.4.3-1~jessie_amd64.deb Size: 2884 SHA256: 212e1d9e7aaab5964dcb8002bcc0d238cd41c0f51bf6309dd251c5140cd9ff91 SHA1: 7964674ed4610a73511b69e0af3d084079f0b93c MD5sum: c05741be14164b938e5209097f5818c4 Description: Proteomics grouping algorithm Grouping-protein implements a fast algorithm that can filter thousands of peptides Package: libmstoolkit-dev Source: libmstoolkit Version: 77.0.0-1~jessie+1 Architecture: amd64 Maintainer: The Debichem Group Installed-Size: 1795 Depends: libmstoolkit77 (= 77.0.0-1~jessie+1), libzip-dev (>= 0.11.2), libhdf5-dev (>= 1.8.13), libsqlite3-dev (>= 3.8.6), libexpat1-dev (>= 2.1.0) Conflicts: libmstoolkit73 Homepage: https://github.com/mhoopmann/mstoolkit Priority: optional Section: libdevel Filename: pool/main/libm/libmstoolkit/libmstoolkit-dev_77.0.0-1~jessie+1_amd64.deb Size: 264030 SHA256: f4622447ae2d6dcdec15d3f696fa73ef64552614fa89ebf1194178deba31ed59 SHA1: 9ee140dae8436943ba4c9a2a6ae6f6456494f68d MD5sum: 303bdd9f1910fc8640f2b6323cb2fab0 Description: libraries for manipulating mass spectrometry data - dev files The MSToolkit is a light-weight C++ library for reading, writing, and manipulating mass spectrometry data. The MSToolkit is easily linked to virtually any C++ algorithm for simple, fast file reading and analysis. . Supported File Formats: ----------------------- - read-only mzML including internal compression (zlib and numpress) and external compression (.mzML.gz) read-only; - read-only mzXML including internal compression (zlib) and external compression (.mzXML.gz) - read/write mgf, ms1, ms2, bms1, bms2, cms1, cms2 . Simple Interface: ------------------ - Open any file format from a single function call; - Store any spectrum in a simple, comprehensive data structure; - Sequential or random-access file reading. Package: libmstoolkit77 Source: libmstoolkit Version: 77.0.0-1~jessie+1 Architecture: amd64 Maintainer: The Debichem Group Installed-Size: 641 Depends: libc6 (>= 2.14), libexpat1 (>= 2.0.1), libgcc1 (>= 1:4.1.1), libhdf5-8, libsqlite3-0 (>= 3.5.9), libstdc++6 (>= 4.9), libzip2 (>= 0.10) Conflicts: libmstoolkit73 Homepage: https://github.com/mhoopmann/mstoolkit Priority: optional Section: libs Filename: pool/main/libm/libmstoolkit/libmstoolkit77_77.0.0-1~jessie+1_amd64.deb Size: 138140 SHA256: bbd1059e829a0dc890a7c4afe64501a2b9b09d861801d51aae6318887e140624 SHA1: 738bd3050e061da05708402f39e01c5499b14bad MD5sum: 699c9eeb74a053c092599967bf930c6b Description: libraries for manipulating mass spectrometry data - runtime The MSToolkit is a light-weight C++ library for reading, writing, and manipulating mass spectrometry data. The MSToolkit is easily linked to virtually any C++ algorithm for simple, fast file reading and analysis. . Supported File Formats: ----------------------- - read-only mzML including internal compression (zlib and numpress) and external compression (.mzML.gz) read-only; - read-only mzXML including internal compression (zlib) and external compression (.mzXML.gz) - read/write mgf, ms1, ms2, bms1, bms2, cms1, cms2 . Simple Interface: ------------------ - Open any file format from a single function call; - Store any spectrum in a simple, comprehensive data structure; - Sequential or random-access file reading. . This package ships these libraries: . - libmstoolkit; - libmstoolkitlite; Package: libmstoolkit77-dbg Source: libmstoolkit Version: 77.0.0-1~jessie+1 Architecture: amd64 Maintainer: The Debichem Group Installed-Size: 1539 Depends: libmstoolkit77 (= 77.0.0-1~jessie+1) Conflicts: libmstoolkit73 Homepage: https://github.com/mhoopmann/mstoolkit Priority: extra Section: debug Filename: pool/main/libm/libmstoolkit/libmstoolkit77-dbg_77.0.0-1~jessie+1_amd64.deb Size: 1427580 SHA256: 22ae7786a920007a271430f6cc601675f28df7838a0e0e7c94f1ae2ab29e7416 SHA1: 38e3e58f90880cc51f11889bb35403e770b0594f MD5sum: 1aa6efbba1454702dce79bc2f98cac44 Description: libraries for manipulating mass spectrometry data - debug symbols The MSToolkit is a light-weight C++ library for reading, writing, and manipulating mass spectrometry data. The MSToolkit is easily linked to virtually any C++ algorithm for simple, fast file reading and analysis. . Supported File Formats: ----------------------- - read-only mzML including internal compression (zlib and numpress) and external compression (.mzML.gz) read-only; - read-only mzXML including internal compression (zlib) and external compression (.mzXML.gz) - read/write mgf, ms1, ms2, bms1, bms2, cms1, cms2 . Simple Interface: ------------------ - Open any file format from a single function call; - Store any spectrum in a simple, comprehensive data structure; - Sequential or random-access file reading. . This package provides the debugging symbols for libmstoolkit and libmstoolkitlite. Package: libodsstream-dev Source: libodsstream Version: 0.4.8-1 Architecture: amd64 Maintainer: Olivier Langella Installed-Size: 83 Depends: libodsstream-qt4 (= 0.4.8-1), libodsstream-qt5 (= 0.4.8-1), libquazip-dev Multi-Arch: same Homepage: http://pappso.inra.fr/bioinfo Priority: optional Section: libdevel Filename: pool/main/libo/libodsstream/libodsstream-dev_0.4.8-1_amd64.deb Size: 7452 SHA256: ea9936dc190c02ef849a1c58dab83cf54c6050fefe6f380a317bc3297f6d4702 SHA1: dbfc7472588edc38e3270d523eb4803271687d2c MD5sum: fa45f4aef1a3c6ec8a8fdf47ab108b35 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: libodsstream-doc Source: libodsstream Version: 0.4.8-1 Architecture: amd64 Maintainer: Olivier Langella Installed-Size: 961 Multi-Arch: same Homepage: http://pappso.inra.fr/bioinfo Priority: optional Section: libdevel Filename: pool/main/libo/libodsstream/libodsstream-doc_0.4.8-1_amd64.deb Size: 98936 SHA256: 3fa758eb0ecc5a0dd0552efe580dac4887a6f0fcae52c1fba84c0726b0306d35 SHA1: d90c1d5777734d3c741a5861ce191a705a2b4af1 MD5sum: d2ad807b8df3573b2f3daa9cb27edbd8 Description: doxygen documentation of the ODSstream library libodsstream provides a simple way to read and write Open Document Spreadsheet files using streams only to be memory efficient. Package: libodsstream-qt4 Source: libodsstream Version: 0.4.8-1 Architecture: amd64 Maintainer: Olivier Langella Installed-Size: 540 Depends: libc6 (>= 2.2.5), libgcc1 (>= 1:4.1.1), libqt4-xml (>= 4:4.5.3), libqtcore4 (>= 4:4.6.1), libqtgui4 (>= 4:4.5.3), libquazip1, libstdc++6 (>= 4.1.1) Multi-Arch: same Homepage: http://pappso.inra.fr/bioinfo Priority: optional Section: libs Filename: pool/main/libo/libodsstream/libodsstream-qt4_0.4.8-1_amd64.deb Size: 84804 SHA256: 25896a678cc59a1c4a1a3d91686217b34597dedfd29a58d928e413dea98d0f57 SHA1: 616113b7da4e526ec58393b98d7595b63542be59 MD5sum: 11809d604bf957b487c345e4b28c0018 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: libodsstream-qt5 Source: libodsstream Version: 0.4.8-1 Architecture: amd64 Maintainer: Olivier Langella Installed-Size: 563 Depends: libc6 (>= 2.2.5), libgcc1 (>= 1:4.1.1), libqt5core5a (>= 5.3.0), libqt5gui5 (>= 5.0.2), libqt5xml5 (>= 5.1.0), libquazip-qt5-1, libstdc++6 (>= 4.1.1) Multi-Arch: same Homepage: http://pappso.inra.fr/bioinfo Priority: optional Section: libs Filename: pool/main/libo/libodsstream/libodsstream-qt5_0.4.8-1_amd64.deb Size: 75080 SHA256: 444930b5d3dacb8fa0c335bc23599d27b566145d203b4e7198336c8ee1bf7c69 SHA1: c5ec13e14dc7d982f7469048705df9656dfa1d11 MD5sum: f1345eeda940dcfdcb7a7bb29562c23a 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: 0.1.1-2 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_0.1.1-2_amd64.deb Size: 1486 SHA256: 4a9e4d01a376714ec7bfe192115507d925b3abf7716d217a883722d6e8fd3a05 SHA1: 7864b762e640d54995bbb8e5edf0dcb26f18f412 MD5sum: 1380ed1df951e460bd30058855910df1 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: libpappsomspp-dev Source: libpappsomspp Version: 0.2.35-1 Architecture: amd64 Maintainer: Olivier Langella Installed-Size: 298 Depends: libpappsomspp-qt4 (= 0.2.35-1), libpappsomspp-qt5 (= 0.2.35-1) Multi-Arch: same Homepage: http://pappso.inra.fr/bioinfo Priority: optional Section: libdevel Filename: pool/main/libp/libpappsomspp/libpappsomspp-dev_0.2.35-1_amd64.deb Size: 28050 SHA256: 7ed91d3922eb75684098cb11f0ac4bab2a0fdf4abbf4113ad3bfd75d6eb06948 SHA1: 7e9f1e185070b1ead079e6a3925abb946f3deb19 MD5sum: a00317460b622bde85f43f92022f8db7 Description: development files for the proteomic PAPPSOms++ library libpappsomspp provides a simple API to handle peptides, spectrum, ions, amino acid mofifications. the development files contains a cmake module to easily find and configure PAPPSOms++ library Package: libpappsomspp-doc Source: libpappsomspp Version: 0.2.35-1 Architecture: amd64 Maintainer: Olivier Langella Installed-Size: 4128 Multi-Arch: same Homepage: http://pappso.inra.fr/bioinfo Priority: optional Section: libdevel Filename: pool/main/libp/libpappsomspp/libpappsomspp-doc_0.2.35-1_amd64.deb Size: 276534 SHA256: 410e1ce8a6d70244c652cfd7e7083548346e8edf20ef76f1e881751ed19c89b2 SHA1: 7fe05137de789d962cae18482bff4712b32dd1c6 MD5sum: 628cd89b18607cadfef1b11e976b99a0 Description: doxygen documentation of the PAPPSOms++ library libpappsomspp provides a simple API to handle peptides, spectrum, ions, amino acid mofifications. Package: libpappsomspp-qt4 Source: libpappsomspp Version: 0.2.35-1 Architecture: amd64 Maintainer: Olivier Langella Installed-Size: 2706 Depends: libc6 (>= 2.2.5), libgcc1 (>= 1:4.1.1), libqtcore4 (>= 4:4.7.0~beta1), libqtgui4 (>= 4:4.5.3), libstdc++6 (>= 4.9) Multi-Arch: same Homepage: http://pappso.inra.fr/bioinfo Priority: optional Section: libs Filename: pool/main/libp/libpappsomspp/libpappsomspp-qt4_0.2.35-1_amd64.deb Size: 569124 SHA256: 44cf8112cd70aff731614f5a26de4f624c165658415e9eacd68ff377f7e74dec SHA1: 858ec568c020c29a3c96732168be13190ca796e2 MD5sum: 6a2c804ef6adf4368b03480df942d067 Description: C++ library to handle proteomic data libpappsomspp provides a simple API to handle peptides, spectrum, ions, amino acid mofifications... Package: libpappsomspp-qt4-dbgsym Source: libpappsomspp Version: 0.2.35-1 Architecture: amd64 Maintainer: Olivier Langella Installed-Size: 27 Multi-Arch: same Homepage: http://pappso.inra.fr/bioinfo Priority: extra Section: debug Filename: pool/main/libp/libpappsomspp/libpappsomspp-qt4-dbgsym_0.2.35-1_amd64.deb Size: 3222 SHA256: 04304be87948022c1e6f877dbea349440ad7fee70b4bb18509fc97e89de46c98 SHA1: 856d1c515c929522b866c5a2a43b48e33d212a78 MD5sum: cbf9fd8566091bfc835dabbd8e98e85d Description: C++ library to handle proteomic data libpappsomspp provides a simple API to handle peptides, spectrum, ions, amino acid mofifications... Package: libpappsomspp-qt5 Source: libpappsomspp Version: 0.2.35-1 Architecture: amd64 Maintainer: Olivier Langella Installed-Size: 2680 Depends: libc6 (>= 2.2.5), libgcc1 (>= 1:4.1.1), libqt5concurrent5 (>= 5.0.2), libqt5core5a (>= 5.3.0), libqt5gui5 (>= 5.0.2), libstdc++6 (>= 4.9) Multi-Arch: same Homepage: http://pappso.inra.fr/bioinfo Priority: optional Section: libs Filename: pool/main/libp/libpappsomspp/libpappsomspp-qt5_0.2.35-1_amd64.deb Size: 509414 SHA256: 66f52c46b1fcbf137eaa9c159586cfffdf584ebbd63592d3ba3fd76851ca6797 SHA1: b22e2f498feaca9ea1165eeec85c4d88190457e0 MD5sum: 0f79b21636024a56c67168c4dbb7c15f Description: C++ library to handle proteomic data libpappsomspp provides a simple API to handle peptides, spectrum, ions, amino acid mofifications... Package: libpappsomspp-qt5-dbgsym Source: libpappsomspp Version: 0.2.35-1 Architecture: amd64 Maintainer: Olivier Langella Installed-Size: 27 Multi-Arch: same Homepage: http://pappso.inra.fr/bioinfo Priority: extra Section: debug Filename: pool/main/libp/libpappsomspp/libpappsomspp-qt5-dbgsym_0.2.35-1_amd64.deb Size: 3218 SHA256: 0f97e5f6655b68b0b4b90d6812f400b8c9c0f6f6edd99659611d4442622116f8 SHA1: 3e3a32b85f8b5e3f704b90dcbed07dc3fb915121 MD5sum: 734511dd27dad5d5674785c3d7ebf258 Description: C++ library to handle proteomic data libpappsomspp provides a simple API to handle peptides, spectrum, ions, amino acid mofifications... Package: libpappsomspp0 Source: libpappsomspp Version: 0.0.1-3 Architecture: amd64 Maintainer: Olivier Langella Installed-Size: 25 Multi-Arch: same Homepage: http://pappso.inra.fr/bioinfo Priority: optional Section: libs Filename: pool/main/libp/libpappsomspp/libpappsomspp0_0.0.1-3_amd64.deb Size: 1456 SHA256: 13d4f12db6546af829ab42ee71825a52e41ce5c819f57bd96dfee1af96a79f26 SHA1: ab373f07c4111fec4610fd037559d8515e932854 MD5sum: de37a7576823a0bc0b25c67917b29409 Description: C++ library to handle proteomic data libpappsomspp provides a simple API to handle peptides, spectrum, ions, amino acid mofifications... Package: masschroq Version: 2.2.2-4 Architecture: amd64 Maintainer: Olivier Langella Installed-Size: 62 Depends: libc6 (>= 2.2.5), libgcc1 (>= 1:4.1.1), libodsstream-qt4, libpappsomspp-qt4, 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 (>= 4.2.1), masschroq-common (= 2.2.2-4) Suggests: masschroq-doc, masschroq-gui, masschroq-studio Homepage: http://pappso.inra.fr/bioinfo/masschroq/ Priority: optional Section: science Filename: pool/main/m/masschroq/masschroq_2.2.2-4_amd64.deb Size: 14778 SHA256: d404e761d556ab9c2c1679eeb118910b310e186eb95d12ea2e66870874d2f131 SHA1: d716b3ce5ec94e2151b1dce7ce4091f526d80488 MD5sum: fc1f562c905c2dda817733b149a1c3c5 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: 2.2.2-4 Architecture: amd64 Maintainer: Olivier Langella Installed-Size: 920 Depends: libc6 (>= 2.2.5), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.9), libqtcore4 (>= 4.6.3), libpappsomspp-qt4 (= 0.2.35-1), libodsstream-qt4 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_2.2.2-4_amd64.deb Size: 276412 SHA256: e0845cacc838cf290ed7724f2aba7244c454b677f0d725772e5f96e637a4f34c SHA1: 72d89457d95cef9e007e0088d0eecf28c729c9c3 MD5sum: 14a806bf23dc51c37c304081af95f5f6 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: 2.2.2-4 Architecture: all Maintainer: Olivier Langella Installed-Size: 40 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_2.2.2-4_all.deb Size: 8658 SHA256: 85066ad457c69211630dc3b804392b2fd9ab250d5858d0337269ed93e306ac0b SHA1: 6ee89104c086b01a716b6f19dd9b63bbf151169c MD5sum: cce55573691d64c2e620722146764b22 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: 2.2.2-4 Architecture: all Maintainer: Olivier Langella Installed-Size: 796 Suggests: masschroq, masschroq-gui, masschroq-studio Homepage: http://pappso.inra.fr/bioinfo/masschroq/ Priority: optional Section: science Filename: pool/main/m/masschroq/masschroq-doc_2.2.2-4_all.deb Size: 785796 SHA256: f8a5fd3892a3b5bb8bfbf53d9030ae46023672494a2b0b8a627a35bd0069e8e5 SHA1: 10f5837f74ac7ae2990d76b324a09249253b0e93 MD5sum: fe37762d3db178af66fb0b476df52adb Description: Mass Chromatogram Quantification documentation Installs PDF documentation for MassChroQ in /usr/share/doc/masschroq Package: masschroq-gui Source: masschroq Version: 2.2.2-4 Architecture: amd64 Maintainer: Olivier Langella Installed-Size: 101 Depends: libc6 (>= 2.2.5), libgcc1 (>= 1:4.1.1), libodsstream-qt4, libpappsomspp-qt4, 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), libstdc++6 (>= 4.1.1), masschroq-common (= 2.2.2-4) Suggests: masschroq-doc, masschroq-studio Homepage: http://pappso.inra.fr/bioinfo/masschroq/ Priority: optional Section: science Filename: pool/main/m/masschroq/masschroq-gui_2.2.2-4_amd64.deb Size: 25618 SHA256: 9fac33b4118b8aba96d3dfd8178d21dd84de192ff2ad6290cf6ccc6517354183 SHA1: 99dd8a5ffe921ef3bf22c51c7e19979f82b3f9da MD5sum: 0f4b5c96fbc0a48c0cf411b6564f9b5e 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: 2.2.2-4 Architecture: amd64 Maintainer: Olivier Langella Installed-Size: 343 Depends: libc6 (>= 2.14), libgcc1 (>= 1:4.1.1), libodsstream-qt4, libpappsomspp-qt4, 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), libqwt6 (>= 6.0.0), libstdc++6 (>= 4.6), masschroq-common (= 2.2.2-4) Suggests: masschroq-doc, masschroq-gui Homepage: http://pappso.inra.fr/bioinfo/masschroq/ Priority: optional Section: science Filename: pool/main/m/masschroq/masschroq-studio_2.2.2-4_amd64.deb Size: 93760 SHA256: cc7b1252acddcc2158fc68317dc60ee11c9a158b27dff0fa5ff9ba139d8f1848 SHA1: 3b17cdfaf8dd4ebc9702e189afeabf6b39387229 MD5sum: a3c4c03cff8a28274276de9edb7af98f 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: masschroqprm Version: 0.2.6-11 Architecture: amd64 Maintainer: Olivier Langella Installed-Size: 358 Depends: libc6 (>= 2.2.5), libgcc1 (>= 1:4.1.1), libodsstream-qt5, libpappsomspp-qt5 (= 0.2.35-1), libpwiz3 (>= 3.0.0), libqt5core5a (>= 5.3.0), libqt5gui5 (>= 5.0.2), libqt5xml5 (>= 5.1.0), libstdc++6 (>= 4.9) Multi-Arch: same Homepage: http://pappso.inra.fr/bioinfo Priority: optional Section: libs Filename: pool/main/m/masschroqprm/masschroqprm_0.2.6-11_amd64.deb Size: 71906 SHA256: df351029d6aedba5668bcdb8b82bf860f1d176ba894948749214dc918a4f8530 SHA1: 2ece196280c7a6fe507dcc44fc2cfdec82de126d MD5sum: cc4409df0a9c16884837379e87d710dc Description: mass chromatogram quantification using MS/MS transitions (Parallel Reaction Monitoring). Package: ms-eater Version: 0.3.4-1 Architecture: all Maintainer: Olivier Langella Installed-Size: 100 Depends: python-matplotlib, python-qt4 Multi-Arch: foreign Homepage: http://pappso.inra.fr/bioinfo Priority: optional Section: libs Filename: pool/main/m/ms-eater/ms-eater_0.3.4-1_all.deb Size: 13204 SHA256: 7c683adc31b034e51eadae0632509bd38fdace629781c7c5a103cd194eb874e0 SHA1: b6780ed3fb2a929fe8562af4ac6483f419948330 MD5sum: 9fde13e11b591636523960888a5ea7c1 Description: set of proteomic tools used on PAPPSO. computes peptide mass, isotope ratio, fragmentation products, protein grouper. Package: mzmine Version: 2.12-3 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_2.12-3_all.deb Size: 69230424 SHA256: 04ada47f5bea30965b91280a5887cdf90c816f9f75072711752251aee94099fb SHA1: 0afec9e1b7e8c4e0c60b49ab4d2198fd339e54d7 MD5sum: 8e25a426ac0c12825a904c4f133a11c4 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: ods2tsv Source: libodsstream Version: 0.4.8-1 Architecture: amd64 Maintainer: Olivier Langella Installed-Size: 55 Depends: libc6 (>= 2.2.5), libgcc1 (>= 1:4.1.1), libodsstream-qt5 (= 0.4.8-1), libqt5core5a (>= 5.3.0), libqt5gui5 (>= 5.0.2), libqt5xml5 (>= 5.0.2), libquazip-qt5-1, libstdc++6 (>= 4.1.1) Multi-Arch: same Homepage: http://pappso.inra.fr/bioinfo Priority: optional Section: libs Filename: pool/main/libo/libodsstream/ods2tsv_0.4.8-1_amd64.deb Size: 10572 SHA256: abedef0b1d31880e5222b1603e61ded6cad12d3aaf49ffd95ee25bd3d5ff4c50 SHA1: 1659d86db83d09158c59990e50a208375e3407e7 MD5sum: 5d7100fc5cefd9cd149e790ecb1f9327 Description: ODS to TSV file converter uses libodsstream to convert Open Document Spreadsheet files to TSV format. Package: pappsoms-tools Version: 0.2.25-1 Architecture: amd64 Maintainer: Olivier Langella Installed-Size: 632 Depends: libc6 (>= 2.2.5), libgcc1 (>= 1:4.1.1), libodsstream-qt4, libodsstream-qt5, libpappsomspp-qt4 (= 0.2.35-1), libpappsomspp-qt5 (= 0.2.35-1), libpwiz3 (>= 3.0.0), libqt4-svg (>= 4:4.5.3), libqt5core5a (>= 5.3.0), libqt5gui5 (>= 5.2.0), libqt5svg5 (>= 5.0.2), libqt5widgets5 (>= 5.0.2), libqt5xml5 (>= 5.0.2), libqtcore4 (>= 4:4.7.0~beta1), libqtgui4 (>= 4:4.5.3), libstdc++6 (>= 4.6), libqt4-gui, libqt4-xml Multi-Arch: same Homepage: http://pappso.inra.fr/bioinfo Priority: optional Section: libs Filename: pool/main/p/pappsoms-tools/pappsoms-tools_0.2.25-1_amd64.deb Size: 146038 SHA256: cd9a0a4342f322619628b5c1a627821a4fa63a5a9f0a76b4db34d24097d94e62 SHA1: bf3acd77c76ca2162afc4440c913d222397d88cc MD5sum: e634aba9cf80d2041c617dde817a264a Description: set of proteomic tools used on PAPPSO. computes peptide mass, isotope ratio, fragmentation products, protein grouper. Package: pepnovo Version: 3.1.2010225-6 Architecture: amd64 Maintainer: Olivier Langella Installed-Size: 20368 Depends: libc6 (>= 2.14), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.9) Homepage: http://proteomics.ucsd.edu/Software/PepNovo.html Priority: optional Section: science Filename: pool/main/p/pepnovo/pepnovo_3.1.2010225-6_amd64.deb Size: 5287572 SHA256: a96b8b4a4177a3db79724a85645c29a89c76a1a57f5ddcdad6397fefb718f4e2 SHA1: aa314d7918cd7dc7baa9fdd88b5b53f75d0237cf MD5sum: 741e3a08de564b25d01edc7b74dccd40 Description: denovo protein identification denovo protein identification Original-Maintainer: Olivier Langella Package: pepnovopipeline Version: 1.5.1-3 Architecture: amd64 Maintainer: Olivier Langella Installed-Size: 516 Depends: icedtea-netx, openjdk-7-jre, pepnovo, libbatik-java (>= 1.7), fasta Homepage: http://pappso.inra.fr/ Priority: optional Section: science Filename: pool/main/p/pepnovopipeline/pepnovopipeline_1.5.1-3_amd64.deb Size: 428744 SHA256: e770402046a6543775c064d4a355a17af8c4e7efa2b9af6f8fff0154f8f511af SHA1: 35d70f1bb33a81747be2b9a398d5d40f390d4705 MD5sum: 011ba77d3e3ebc49e545b57e6c058b98 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: peptider Version: 0.1.13-4 Architecture: amd64 Maintainer: Olivier Langella Installed-Size: 357 Depends: libc6 (>= 2.2.5), libgcc1 (>= 1:4.1.1), libodsstream-qt5, libpappsomspp-qt5 (= 0.2.34-1), libpwiz3 (>= 3.0.0), libqt5concurrent5 (>= 5.0.2), libqt5core5a (>= 5.3.0), libqt5gui5 (>= 5.0.2), libqt5xml5 (>= 5.0.2), libstdc++6 (>= 4.8) Multi-Arch: same Homepage: http://pappso.inra.fr/bioinfo Priority: optional Section: science Filename: pool/main/p/peptider/peptider_0.1.13-4_amd64.deb Size: 108228 SHA256: 77e3cec670205ea431325dd825c5f239f370846744c423030fc3ae6f071f2744 SHA1: ccf5935e94c93373af4d7938fac66ad0c575efb2 MD5sum: ba9b301266aa9ede6a759a0e08e09294 Description: Peptide identifier using mass spectrometry LC/MS method and MS/MS fragmentation Peptide identifier using mass spectrometry LC/MS method and MS/MS fragmentation. Package: peptider-dbgsym Source: peptider Version: 0.1.13-4 Architecture: amd64 Maintainer: Olivier Langella Installed-Size: 25 Multi-Arch: same Homepage: http://pappso.inra.fr/bioinfo Priority: extra Section: debug Filename: pool/main/p/peptider/peptider-dbgsym_0.1.13-4_amd64.deb Size: 1998 SHA256: f0a340b6a487ff4b5fb9658d65b0414966197ab77da3416bb15081485fff0e1f SHA1: 7aa8dc8452e31f76f7b57433cefd84eac4620c96 MD5sum: 9d4ae269965a9092c7342e9a3dce5636 Description: Peptide identifier using mass spectrometry LC/MS method and MS/MS fragmentation Peptide identifier using mass spectrometry LC/MS method and MS/MS fragmentation. Package: pwiz-tools Version: 3.0.4626 Architecture: all Maintainer: Olivier Langella Installed-Size: 26 Depends: tandem-mass Conflicts: libpwiz-tools Provides: libpwiz-dev, libpwiz-doc, libpwiz3 Homepage: http://pappso.inra.fr/bioinfo Priority: optional Section: misc Filename: pool/main/p/pwiz-tools/pwiz-tools_3.0.4626_all.deb Size: 2186 SHA256: a98c38c11f7e2154b4920e970e0a51a44cb87160d0521a13fbbd822776e880a6 SHA1: bca6e7835b7212992fca4687fe784290982e7294 MD5sum: f85a97440b63db847fd9dc4b888f9d6a Description: fake package to uninstall Wheezy pwiz-tools bakport one fake package to uninstall Wheezy pwiz-tools bakport one Package: python-pappsoms-tools Source: pappsoms-tools Version: 0.2.0-2 Architecture: all Maintainer: Olivier Langella Installed-Size: 78 Depends: python, python-matplotlib, python-qt4 Homepage: http://pappso.inra.fr/bioinfo Priority: optional Section: libs Filename: pool/main/p/pappsoms-tools/python-pappsoms-tools_0.2.0-2_all.deb Size: 9766 SHA256: d9e70d10f4cbc376451dbc5185a807a8eea8d51aea373d4293aa7c545fb86cdd SHA1: e90f67dc3afbcf8f0555e5808dd5f5f5018b2d32 MD5sum: b422fd08ec07850bb398aa7123e0786b Description: set of proteomic tools used on PAPPSO. computes peptide mass, isotope ratio, fragmentation products, protein grouper. Package: tandem-mass Version: 1:20150401-1.1 Architecture: amd64 Maintainer: The Debichem Group Installed-Size: 680 Depends: libc6 (>= 2.14), libexpat1 (>= 2.0.1), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.9) Homepage: http://www.thegpm.org/TANDEM/ Priority: optional Section: science Filename: pool/main/t/tandem-mass/tandem-mass_20150401-1.1_amd64.deb Size: 216724 SHA256: 6d73c72e4eb5546a0d517b580115b0e45fb7ff3a961112c360d0fa19c7637d86 SHA1: 528e5825225d7482ce3c7fbf3c954b2bab73f3fb MD5sum: 0393014a9077af98044607e879e03973 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: tandem-mass-dbg Source: tandem-mass Version: 1:20151215-4~jessie+1 Architecture: amd64 Maintainer: The Debichem Group Installed-Size: 11472 Depends: tandem-mass (= 1:20151215-4~jessie+1) Homepage: http://www.thegpm.org/TANDEM/ Priority: extra Section: debug Filename: pool/main/t/tandem-mass/tandem-mass-dbg_20151215-4~jessie+1_amd64.deb Size: 2023108 SHA256: 87bb72e677d6d2b8e902d031a887e35e41ec505455221a884b96d9d3700ce845 SHA1: 23f77903d5fd80eb120c09a7efdb7091cd25bbaf MD5sum: 6d08c075a9fb6cd62aa2a5196c15c826 Description: mass spectrometry software for protein identification - debug symbols 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 http://www.thegpm.org/docs/X_series_output_form.pdf . 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. . This package provides the debugging symbols for tandem-mass. Package: task-pappso-tools Version: 0.3.5 Architecture: all Maintainer: Olivier Langella Installed-Size: 27 Depends: fastamanager, beads, masschroq-gui, masschroq-studio, masschroq-doc, xtandempipeline, openms, topp, grouping-protein, pepnovopipeline, denovopipeline-ng, xtandempipeline-doc, massxpert, mmass, mzmine Conflicts: pwiz-tools (<= 3.0.4625) Homepage: http://pappso.inra.fr/bioinfo Priority: optional Section: misc Filename: pool/main/t/task-pappso-tools/task-pappso-tools_0.3.5_all.deb Size: 2374 SHA256: 602db75c399c1d90c8ff61b12023f089665bf2122eafb60691d70c5e42092c65 SHA1: b5a4f76abe5bf5c9a5871fa1990cf3bd3486dad1 MD5sum: 2ba40195f448212a562820d4be1ee6f8 Description: install proteomic software used on PAPPSO install proteomic software used on PAPPSO Package: xtandempipeline Version: 3.4.3-2 Architecture: all Maintainer: Olivier Langella Installed-Size: 3078 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), libwebkitgtk-1.0-0 Conflicts: xtandem-cyclone, xtandemparser (<< 2.9.8-2~) Replaces: xtandemparser (<< 2.9.8-2~) Homepage: http://pappso.inra.fr/ Priority: optional Section: main/science Filename: pool/main/x/xtandempipeline/xtandempipeline_3.4.3-2_all.deb Size: 2729394 SHA256: 5a96376411ef0476f6e72f20910a85dae3da69786b162783bff8c3463ef585c8 SHA1: cab0c93f1a8f0d9074462945d96a60248bbfec14 MD5sum: b006dbcc004ea294338a9e729d1ec717 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: 3.4.3-2 Architecture: all Maintainer: Olivier Langella Installed-Size: 2725 Suggests: xtandempipeline Homepage: http://pappso.inra.fr/ Priority: optional Section: main/science Filename: pool/main/x/xtandempipeline/xtandempipeline-doc_3.4.3-2_all.deb Size: 2763142 SHA256: 08fc2a0f1cb3347df842d2de6a00f98b5f39ca7c5b6bc1b4c0a82e56cf57d745 SHA1: 793a011d2730e765a06647299f83a11b1b50ad1c MD5sum: 0f32e0ec3f0f4772850c20076bc8d965 Description: X!TandemPipeline documentation Installs PDF documentation for X!TandemPipeline in /usr/share/doc/xtandempipeline-doc Package: xtpcpp Version: 0.1.13-1 Architecture: amd64 Maintainer: Olivier Langella Installed-Size: 1086 Depends: libc6 (>= 2.14), libgcc1 (>= 1:4.1.1), libodsstream-qt4, libpappsomspp-qt4 (= 0.2.35-1), libpwiz3 (>= 3.0.0), libqt4-svg (>= 4:4.5.3), libqt4-xml (>= 4:4.5.3), libqtcore4 (>= 4:4.7.0~beta1), libqtgui4 (>= 4:4.8.0), libstdc++6 (>= 4.9) Multi-Arch: same Homepage: http://pappso.inra.fr/bioinfo Priority: optional Section: libs Filename: pool/main/x/xtpcpp/xtpcpp_0.1.13-1_amd64.deb Size: 304484 SHA256: c9954fff669466cf9d3d4371b27b192b46b929a69f8d60c12d4ef9c22cac2b37 SHA1: b6885a59793fc6c9fe1de2b451025f92be16c601 MD5sum: eb423a956ab9d2fe00be59366337f772 Description: C++ version of X!TandemPipeline