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Showing 156 open source projects for "tree\"
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EasierMGF
Converts RAW Thermo Files into MGF files
Converts RAW Thermo Files into MGF files (Python 3 version). For more information, you can have a look at the README.md file in the source code tree: https://sourceforge.net/p/lp-csic-uab/easiermgf3/code/ci/default/tree/README.md - Gallardo, Ó., Ovelleiro, D., Gay, M., Carrascal, M., & Abian, J. (2014). A collection of open source applications for mass spectrometry data mining. PROTEOMICS, 14(20), 2275–2279. https://doi.org/10.1002/pmic.201400124 -
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Python4Proteomics Course
Python course for Proteomics analysis
Python course (in Spanish) for Proteomics analysis using basically Jupyter NoteBooks. For more information, you can have a look at the readme.md file in the source code tree: https://sourceforge.net/p/lp-csic-uab/p4p/code/ci/default/tree/readme.md -
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TCellXTalk
TCellXTalk Web-App from LP CSIC/UAB
TCellXTalk is a comprehensive database of experimentally detected phosphorylation, ubiquitination and acetylation sites in human T cells. The web-app at www.TCellXTalk.org makes TCellXTalk accessible from Internet, and enables the in silico prediction of potential co-modified peptides to facilitate their experimental detection, using targeted or directed mass spectrometry, for the study of protein post-translational modification cross-talk. More detailed information on TCellXTalk and... -
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KimPeptid
Analyzes Peptides Properties (Python 3 version)
Analyzes Peptides Properties (Python 3 version). For more information, you can have a look at the README.md file in the source code tree: https://sourceforge.net/p/lp-csic-uab/kimpeptid3/code/ci/default/tree/README.md -
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UniCC LALR(1) Parser Generator
Parser generator, targetting C, C++, Python, JavaScript, JSON and XML
UniCC (UNIversal Compiler-Compiler) compiles an augmented grammar definition into a program source code that parses the described grammar. Because UniCC is intended to be target-language independent, it can be configured via template definition files to emit parsers in almost any programming language. UniCC comes with out of the box support for the programming languages C, C++, Python (both 2.x and 3.x) and JavaScript. Parsers can also be generated into JSON and XML. -
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porttree
Show dependences of a FreeBSD port as a pseudo graphic tree
For a given FreeBSD port, determine its dependences using any combination of the FETCH_, EXTRACT_, PATCH_, BUILD_, LIB_, RUN_ and TEST_DEPENDS, and show them as a pseudo graphical tree. Use back references for cross-connections. -
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Grab Framework Project
Web Scraping Framework
Grab is a python framework for building web scrapers. With Grab you can build web scrapers of various complexity, from simple 5-line scripts to complex asynchronous website crawlers processing millions of web pages. Grab provides an API for performing network requests and for handling the received content e.g. interacting with DOM tree of the HTML document. The single request/response API that allows you to build network request, perform it and work with the received content. The API is built... -
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Nelder Plot Designer
A Computer-aided Tool for Nelder Plot Design
Nelder plot (Nelder 1962) is an experimental design for testing a multiple tree spacings in a single plot. The shape of plot is circular with some number of concentric wheels or arcs radiating outward and the spokes connecting the center. The intersections of spokes and arcs are the tree positions. The tree position on different wheels represent a different the tree spacing distance or tree density. This design eliminates the need for separate experimental plots for each tree density... -
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As of August 2018 Spheral++ has moved to Github -- please see the current repository at https://github.com/jmikeowen/spheral We are leaving a frozen version here on SourceForge for historical reasons. Spheral++ provides a steerable parallel environment for performing coupled hydrodynamical & gravitational numerical simulations. Hydrodynamics and gravity are modelled using particle based methods (SPH and N-Body).
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EfiPy
Python Library for accessing UEFI BIOS internal function by protocol
..., CorePy. Samples https://sourceforge.net/u/efipy/svn/HEAD/tree/Trunk/ EfiPy Author: https://www.linkedin.com/in/max-wu-a9068b90/ -
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SCRAM
Probabilistic Risk Assessment Tool
SCRAM is a free and open source probabilistic risk analysis tool. The tool is under development to include fault tree, event tree, common cause, and other standard analyses. -
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PdfCMYKerLite
PdfCMYKerLite - inspect and remix CMYK separations of PDF file
PdfCMYKerLite is a wxPython GUI front-end for Ghostscript `gs` and ImageMagick `convert`, which uses the Ghostscript tiffsep device to obtain CMYK separations of a PDF document. For full description, see README.md in the code browser at https://sourceforge.net/p/pdfcmykerlite/code/ci/master/tree/ -
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HZDR
Scripts and programs (e. g. THz-Shaker) for work in HZDR
Scripts for evaluation and whole programs for measurements from work in Helmholtz-Zentrum Dresden Rossendorf (www.hzdr.de). One main project was the THz-Shaker (incl. THz-LiveCam and THz-Viewer) as complete new measurement framework. See Code (https://sourceforge.net/p/hzdr/code/) for files. A special thing is the wrapped CsAPI for GaGe CompuScope cards (e. g. Octopus) into Python: https://sourceforge.net/p/hzdr/code/HEAD/tree/thzshaker/device/scope/csapi.py An example of usage can... -
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Parse C++ header files using ply.lex to generate navigable class tree representing the class structure. CppHeaderParser.py has the advantage of being a pure python C++ header parser. Grap a copy of ply at http://www.dabeaz.com/ply/
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jeneo
WISIWIG pedigree tree editor
A WISIWIG pedigree tree editor written on python. Jeneo allow you to create your pedigree tree visually, add pedigree links (child) and (i need that feature first off all - in fact that is why a i've written this app) add photos to your relatives. Jeneo home page has moved to bitbucket. Please visit jeneo wiki at https://bitbucket.org/legeyda/jeneo/wiki/jeneo.en. -
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PyRate
Bayesian Estimation of Speciation and Extinction from Fossil Data
... can be found here: https://github.com/dsilvestro/PyRate/tree/master/tutorials * -
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This is a collection of plugins for Gramps open source genealogy application. These addons extend Gramps functionality with additional reports, gramplets, tools, and views. For more information on Gramps, see http://gramps-project.org/ Addons for the following Gramps series of releases ( 3.2.x / 3.3.x / 3.4.x / 4.0.x / 4.1.x ) source code can be found here: https://sourceforge.net/p/gramps-addons/code/HEAD/tree/ From Gramps 4.2.x series onwards the Addons are available from: https...
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Vegastrike evolved
evolution for vegastrike SpaceSim/Combat/Trade game
... and campain editor , etc ... _MMO : Create somewhere a dedicated host to help debug the actual working network code . Artists ( Sound , Image , Video , Mesh modelling , Animation ) and Devs are welcome ! Our ShipYard : https://sourceforge.net/p/vegastrikevo/wiki/Shipyard/ Checkout for alpha version : https://sourceforge.net/p/vegastrikevo/svn/HEAD/tree/branch/VS_evolved_v1.0/ -
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Analyzer for Files
A tool to look into file contents
Analyzer for Files (AoF) is a tool to look into file contents, analyze the structure with installed plug-ins, and show the results with several split windows including converted data and a tree if successful. It was designed as a workbench with a core and plug-in extensions. It can handle the normal plain-text file and data, complex binaries supported with the corresponding plug-ins. What's more, the developers can deploy and release their own plug-ins according to the plug-in developing... -
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GASiC
Genome Abundance Similarity Correction
... by similarities of genomes. It has superior performance over existing methods. You can find the accompanying paper here: http://nar.oxfordjournals.org/content/41/1/e10.short Thanks to the great work of the SeqAn team, you can now use GASiC as a Knime workflow: https://github.com/seqan/knime_seqan_workflows/tree/master/metagenomics_gasic_workflow -
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PhyloTrack
PhyloTrack, D3.js and JBrowse for phylogeny and positioning of samples
PhyloTrack is a JavaScript--based software tool that integrates the D3.js library for data visualization with the JBrowse tool for genome browser representation. It requires a phylogenetic tree of the common Newick data format as input, as well as three meta data files for samples, clade-defining nodes and clade color definitions - all in tab delimited format. Functionality within PhyloTrack shows the informative markers at each node in the phylogenetic tree, therefore highlighting clade... -
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IncludeGraph
Determine which files get included in source files.
IncludeGraph is a tool written in Python that performs code analysis on a C and C++ source tree. It can determine the inclusion path for a header file as well as provide charts about which headers are the most included ones or which files include the most headers. It also has a limited knowledge of conditional preprocessor constructs by implementing a subset of the functionality of the C preprocessor. -
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Music Merge Manager
Identify duplicate songs based on track metadata (ID3, etc)
... non-duplicated files from one tree to the other. However until the matching code gets a lot more reliable the only action allowed is to export the list of files suspected to be duplicated in both trees. (Prerequisite: uses the `Mutagen' library to process ID3 data and `wx' for the UI.) The latest code is always available via `git' but since there's undoubtedly a lot of bugs right now pre-packaged .ZIP files will only be made available for `big' changes. -
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simplex with branch and bound
A tool for teaching simplex and branch & bound methods
This is a tool for teaching simplex and branch & bound methods. For simplex method, it comes with several examples including degeneracy and cycling, and allow the user to dictate how to pivot. For branch and bound method, it is desinged to interact with the user to explore all possible branch and bound trees. The user can also load a problem from a text file or simply type in a model directly. The format is very simple and very similar to the LP format, see the packed-in examples. -
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TextBlob
TextBlob is a Python library for processing textual data
Simple, Pythonic, text processing, Sentiment analysis, part-of-speech tagging, noun phrase extraction, translation, and more. It provides a simple API for diving into common natural language processing (NLP) tasks such as part-of-speech tagging, noun phrase extraction, sentiment analysis, classification, translation, and more. TextBlob stands on the giant shoulders of NLTK and pattern, and plays nicely with both. Supports word inflection (pluralization and singularization) and lemmatization,...