= ソフトウエア構成 == ソフトウエア構成(オープンソース化前との比較表） 本サイトで配布するオープンソース版の Mass++ (OSS Edition)は、 オープンソース化前に配布されていたフルセット版(Binary Edition)の Mass++ ver. 2.7.4 のソースツリーから特許に関わるコンポーネントや 依存ライブラリ、ドキュメント類を削除したものです。 したがって、一連のプロテオーム解析で必要となるピーク検出等の一部の必須機能が、 オープンソース化された時点では欠落しています。 そこで、現在の OSS Edition で何ができるのか、最新のBinary Editionでできていて OSS Edition でできない事が何か明確にするために、 OSS Edition と Binary Edition の 機能比較表を以下に記します。 [[include(Mass++ Feature Comparison)]] [Mass++ Feature Comparison] ||Component||Category||Plug-in name||Description||Binary Edition||OSS Edition|| ||||Core||-||Full set of programs||IN|||| ||||||-||Environment configuration||IN|||| ||||||-||Java runtime library||IN|||| ||||||-||Library files for Java-codes||IN|||| ||||Document||-||Release note, etc.||IN|||| ||||||-||User's manual||IN|||| ||||||-||Developer's manual|||||| ||||File I/O||File I/O||File R/W basic function||IN||IN|| ||||||mzXml I/O||R/W mzXML files||IN||IN|| ||||||mzml I/O||R/W mzML files||IN||IN|| ||||||AIA Input||Reading AIA (netCDF) files||IN||IN|| ||||||MSB I/O||R/W MSB files||IN||IN|| ||||||Text I/O||R/W plain text files||IN||IN|| ||||||Png Output||Writing PNG files||IN||IN|| ||||||Shimadzu AXIMA||Reading Shimadzu/Kratos AXIMA data files|||||| ||||||Shimadzu Lcms Input||Reading Shimadzu LCMS data files||IN||IN|| ||||||Ab Qstar Input||Reading ABSciex Analyst/AnalystQS data files||IN|||| ||||||Watewrs Input||Reading Waters MassLynx data files||IN|||| ||||||Thermo I/O||Reading ThermoFisher Xcalibur data files||IN|||| ||||||Agilent Input||Reading Agilent MassHunter data files||IN|||| ||||Database||DB Manager||Internal database manager||IN||IN|| ||||||SQLite||Database manager for SQLite||IN||IN|| ||||||PostgreSQL||Database manager for PostgreSQL||IN||IN|| ||||Network||Http Proxy||Configurating HTTP Proxy||IN||IN|| ||||Viewer||MDI Child Frame||MDI window manager||IN||IN|| ||||||Spectrum & Chromatogram Window Mode||Cordinator for Spectrum window and Chromatogram window||IN||IN|| ||||||Profile Canvas||Displaying single window||IN||IN|| ||||||Overlapping Canvas||Displaying overlapping windows||IN||IN|| ||||||Vertical Box Canvas||Displaying windows in stacked format||IN||IN|| ||||||Profile Drawer||Drawing waveform||IN||IN|| ||||||Scale Drawer||Drawing axes and scales||IN||IN|| ||||||Profile Range||Setting spectrum/chromatogram ranges||IN||IN|| ||||||Datamap Canvas||Configuring heat map area||IN||IN|| ||||||Datamap Drawer||Drawing heat maps||IN||IN|| ||||||Sample 3D View||Drawing 3-D graphs||IN||IN|| ||||||Data Map Range||Display range manager for data maps||IN||IN|| ||||||First View||Display manager for opened data||IN||IN|| ||||Spectrum/Chromatogram||Select Range||Sending spectrum/chromatogram information and specified ranges to plug-ins||IN||IN|| ||||||Magnifying View||Magnifying specified area in the spectrum||IN||IN|| ||||||Spectrum Changer||Changing displeyed spectrum||IN||IN|| ||||||Spectrum Precursor Product Changer||Displaying precursor/product ion spectrum||IN||IN|| ||||||Chromatogram Operation||Generating Mass Chromatograms/Base Peak Chromatograms||IN||IN|| ||||||Spectra Search||Searching spectra||IN||IN|| ||||||Raw Waveform||Displaying raw waveform data||IN||IN|| ||||||Peak Waveform||Displaying peaks on waveforms||IN||IN|| ||||Data Map||Data Map Filter||Filtering data for data map||IN||IN|| ||||Pane||Sample Tree View||Sample Tree pane manager||IN||IN|| ||||||Details View||Properties pane manager||IN||IN|| ||||||XYData View||Points/Peaks pane manager||IN||IN|| ||||||Spectra Grid View||Filtered Spectra pane manager||IN||IN|| ||||||Log View||Diagnostic Log pane manager||IN||IN|| ||||Peaks||Peak Picking||Detecting peaks||IN||IN|| ||||||GOZAN||Peak detection by MWD algorithm|||||| ||||||Centroid Mode Labeling||Peak detection by Centroid mode||IN||IN|| ||||||Local Maximum Labeging||Peak detection by Local maximum mode||IN||IN|| ||||||GION ||Peak detection by GION algorithm|||||| ||||||EM Labeling||Peak detection by EM algorithm|||||| ||||||Multi Algorithm Labeling||Peak detection by multiple algorithm||IN||IN|| ||||||API Peak Detection||Application Programing Interface for peak detection||IN||IN|| ||||||Spec Peak Filter Number Of Peaks||Selecting the specified number of highest peaks||IN||IN|| ||||||MRM 3D||2-dimensional peak detection for MRM data||IN||IN|| ||||||Default Charge||Configurating charge setting function||IN||IN|| ||||||Simple Charge Detect||Detecting ion charges with isotopic peaks||IN||IN|| ||||||Intensity Rate Charge Detector||Detecting ion charges with MS/MS spectrum distibution||IN||IN|| ||||||Peak Search||Searching peaks||IN||IN|| ||||||Peaks I/O||R/W peak data||IN||IN|| ||||||Peak Edit||Editing peak properties||IN||IN|| ||||||Mspeaks||Peak detection with Matlab mspeaks function (32bit only) ||IN||IN|| ||||||Mslowess||S/N filtering function with Matlab mslowness function||IN||IN|| ||||||Peak Label Drawer||Drawing peak labels||IN||IN|| ||||Quantitation||Matrix View||Displaying a peak matrix||IN||IN|| ||||||Labeling And Merge||Finding peak position by peak detection||IN||IN|| ||||||Merged Spectrum Peaks||Finding peak position with spectrum peaks||IN||IN|| ||||||MRM Peak Finder||Finding peak position for MRM data||IN||IN|| ||||||Peak Positions File Import||Importing peak position list||IN||IN|| ||||||Simple Peak Position Appender||Manually specifying peak positions||IN||IN|| ||||||Neighbor Peaks||Peak value calculation with neighbor peaks||IN||IN|| ||||||Commons Math||Statistic analysis with Commons Math library||IN||IN|| ||||||U Test||Mann-Whitney's u-test||IN||IN|| ||||||Matrix Group Plot||Plotting group distribution of intensities/areas||IN||IN|| ||||||Matrix Overlapping View||Displaying overlapping waveforms||IN||IN|| ||||||Basic Scaling||Simple normalization of peak intensities||IN||IN|| ||||||Log Scaling||Log-scale normalization of peak intensities|||||| ||||||Vast Scaling||Vast-scale normalization of peak intensities|||||| ||||||Pca Plugin||PCA analysis|||||| ||||||PlsDa Plugin||PLS-DA analysis|||||| ||||||Matrix Peaks Merge||Merging neighbor peaks on peak matrix||IN||IN|| ||||Identification||Identification||Identification function manager|||||| ||||||Mascot Search||Searching sequence database by Mascot|||||| ||||||X Tandem||Searching sequence database by X!Tandem||IN||IN|| ||||||Mass Bank||Support function for MassBank||IN||IN|| ||||||MSn Search||Search engine with MSn spectra|||||| ||||||Mascot PMF For LCMS||Mascot PMF search for LC-MS|||||| ||||||PTM Librarian||PTM Librarian wrapper|||||| ||||||TPP||TPP tool wrapper||IN||IN|| ||||Basic Data Manipulation||Baseline Subtraction||Subtracting baseline values from spectrum waveforms||IN||IN|| ||||||ABC Baseline Detection||Baseline detection algorithm ABC||IN||IN|| ||||||BLT Baseline Detection||Baseline detection algorithm BLT|||||| ||||||Linear Baseline Detection||Baseline detection algorithm Linear||IN||IN|| ||||||Background Subtraction||Subtracting backgroud signals from spectrum waveforms||IN||IN|| ||||||Filter||Filtering waveforms||IN||IN|| ||||||Linear Filter||Filtering waveforms with Linear-mode||IN||IN|| ||||||Window Filter||Filtering waveforms with window search||IN||IN|| ||||||Wavelet Analysis||Wavelet analysis|||||| ||||||Mz Range Filter||Filtering waveforms with m/z ranges||IN||IN|| ||||||Msbackadj Baseline Detection||Detecting baseline with Matlab msbackadj function|||||| ||||||Operation Manager||History recorder of waveform manipulation||IN||IN|| ||||Advanced Data Manipulation||Normalization||Data normalization function||IN||IN|| ||||||Alignment ||Retention time alignment function||IN||IN|| ||||||Merged Spectrum||Merging spectra function||IN||IN|| ||||||Composition||Merging, Subtracting or Dividing objective data||IN||IN|| ||||||Sample Merge||Merging sample data||IN||IN|| ||||||Msms Spectra Merge||Merging MS/MS spectra function||IN||IN|| ||||||Resampling||Resampling spectrum data points||IN||IN|| ||||Shimadzu||Glycan Analysis||N-glycan structure assignment with diagnostic ions||IN||IN|| ||||||Sample Tree Builder||Building sample tree||IN||IN|| ||||||SIMSE||de novo sequencing tool|||||| ||||||Compound Database||Basic compound database for SIMSE||IN||IN|| ||||etc||Clipboard||Clipboard function||IN||IN|| ||||||Settings||Environment settings||IN||IN|| ||||||Help||Showing helps||IN||IN|| ||||||Operation Log||Operation history function||IN||IN|| ||||||PluginManager||Plug-in manager||IN||IN|| ||||||Edit Sample User Properties||Editing user properties||IN||IN|| ||||||Batch Service||Batch operation manager||IN||IN|| ||||||Command Line Batch Service||Running specified batch jobs as commands in the background||IN||IN|| ||||||Script Plugin||Script Console operation manager||IN||IN|| ||||||Iron Python||Iron Python script interpreter||IN||IN|| ||||||Simca Display||SIMCA P+ wrapper||IN||IN|| ||||||Run2Xml||Utilizing Run2xml (Launchpad function)|||||| ||||||Run2Xml Wrapper||Peak detection and waveform filtering function with Run2Xml|||||| ||||||AB3D||Peak detection algorithm AB3D for quantification||IN||IN|| ||||||AB3D (2)||Program files for AB3D algorithm||IN||IN|| ||Sample Data||data||-||Sample data||IN||IN(partially)|| ||Development||development tool kit||-||Library files for C/C++||IN|||| ||||||-||Include files for C/C++||IN|||| ||||||-||Setting files of VS wizard for C/C++||IN|||| ||||||-||Install files of VS wizard for C/C++||IN|||| ||||||-||VS wizard files for C#||IN|||| ||||||-||Sample project files||IN|||| ||Core libraries||||CoreFunctions||Fundamental function for C||IN||IN|| ||||||CoreToolkits||Fundamental classes for C++||IN||IN|| ||||||DataObjects||Basic data object||IN||IN|| ||||||DataOperation||Basic data operation||IN||IN|| ||||||DbTools||Internal database manager||IN||IN|| ||||||EventManager||Event management||IN||IN|| ||||||GLTools||3-D graphic management||IN||IN|| ||||||IdentificationTools||Identification/quantification manager||IN||IN|| ||||||ImageManager||Drawing/imaging manager||IN||IN|| ||||||JavaTools||Java-code management library||IN||IN|| ||||||NetworkTools||Network access function||IN||IN|| ||||||NumericalTools||Numerical calculation function||IN||IN|| ||||||PluginTools||Plug-in operation manager||IN||IN|| ||||||WindowManager||Graphic User Interface library||IN||IN|| ||||||XMLTools||XML file manager||IN||IN|| ||||||CLRManager||.NET Framework wrapper (Basic function)||IN||IN|| ||||||CLRPluginTools||.NET Framework wrapper (plug-in manager)||IN||IN|| ||ExecutableFile||||mspp||||IN||IN|| ||||||msppcmd||||IN||IN||
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