Search Results for "b-tree" - Page 7
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Showing 274 open source projects for "b-tree"
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Scaffold_Builder
Combining de novo and reference-guided assembly with Scaffold_builder
Scaffold_builder is software to order contigs generated by draft sequencing along a reference sequence. Gaps are filled with N's and small overlaps are aligned with Needleman–Wunsch algorithm and the consensus created with IUPAC codes. Scaffold_builder can help in the assembly and annotation of genomes by revealing what is missing and allowing targeted sequencing to close those gaps. (c) Silva GG, Dutilh BE, Matthews TD, Elkins K, Schmieder R, Dinsdale EA, Edwards RA. Please... -
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Bloody Profanity
Fingerprint-only auth screen for KDE/Plasma
...Files that can be overloaded include: .BloodyProfanity/conf/sarcasm.yaml # random fail messages, begin every line with '-' (see yaml docs for more) .BloodyProfanity/img/bg.png .BloodyProfanity/img/error.png Other settings can be changed by editing the globals near the top of locker.py. REQUIREMENTS: KDE, PyYAML, Subprocess32, wxPython, fprintd and of course Python. INSTALLATION # As root b=/usr/share/BloodyProfanity cp -rvp /path/to/bp $b g=/usr/lib/kde4/libexec/kscreenlocker_greet cp -v $g $g.bak cp -vpf $b/locker.py $g # As user fprintd-enroll fprintd-verify # important mkdir -p ~/.BloodyProfanity/conf ~/.BloodyProfanity/img -
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Joint Strike Force
A prototype flight simulator with several dog-fighting scenarios.
...Game library combines some modules inspired by open source pygame projects: PyGGEL Robosim, GalaxyMage, 3D math tests, etc. left, right arrows: roll left/right up, down arrows: pitch up/down [ ]: yaw left,right j,k: yaw left,right + level out left click: shoots gun b: bomb m: missile +: increase throttle -: decrease throttle F1-F4: toggle individual panels F12: turn off panels + cockpit overlay Space: toggle forward/aft views Enter: take screenshot -
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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
...*Please download the most up-to-date code from the "PyRate code" tab on this page or from: https://github.com/dsilvestro/PyRate * *An updated manual can be found here: https://github.com/dsilvestro/PyRate/tree/master/tutorials * -
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mysql2sqlite
converts mysql database to sqlite database using php, pdo or exe
Convert a mysql database to a Sqlite database. Includes two projects : A) A php script B) A windows executable, based on a python script Converts data, indexes and foreign key constraints. About the php script : -don't need a lot of memory -good speed Was projected to use on VDS/VPS. Usage: wget https://sourceforge.net/projects/mysql2sqlite/files/mysql2sqlite/download chmod +x mysql2sqlite ./mysql2sqlite About the Windows executable and the Python script : Usage : edit the in i file to fit your system, and just run the exe or the python script. -
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PyLogAnalyser
A Python multiplatform tool to filter, colorise and analyse logs
...These rules permit to detect an input line according to a regular expression (regex) or line number range, filter it, pass it, colorise in foreground and background, columnise the groups of the regex and enable or disable the rule. The final goal of this tool is to ameliorate reading long and difficult b/w logs, speed up the analysis and enhance day to day wearying activities. As common application, you can colorise adb logcat logs taking the example files and using them (and also, filter unnecessary lines). You can INSTALL it from PyPI: $ python -m pip install pyloganalyser -
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...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://github.com/gramps-project/addons-source
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Vegastrike evolved
evolution for vegastrike SpaceSim/Combat/Trade game
...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 standard. The development site is https://bitbucket.org/cadappl/anafile. -
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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-defining polymorphism. This functionality has been implemented using the tabix tool on the server side, providing simple and rapid access to the information at each tree node, including informative SNPs stored in VCF-similar files. ... -
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**(9 march 2016) this project is continued on github : http://jaapkroe.github.io/polypy ** Python script to analyze (shortest-path) rings in structures read from xyz-files. It can be useful for example to identify defects in crystal structures or molecules.
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GASiC
Genome Abundance Similarity Correction
...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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...ADOMA is a commandline program that can easily be used in pipelines. For more information check the README.md in the Files section. How to cite ADOMA: Zaal, D. and Nota, B. (2016), ADOMA: A Command Line Tool to Modify ClustalW Multiple Alignment Output. Mol. Inf., 35: 42–44. doi: 10.1002/minf.201500083 http://onlinelibrary.wiley.com/doi/10.1002/minf.201500083/abstract
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PyBreak360
breakout/arkanoid clone multiplayers network game at 360°!
...So, i made it: an arkanoid / breakout clone which have the particularity to play at 360°. pybreak360.cfg to fine configure outside game. pybreak360_kbd.py for special international keymap. on game, use mouse or arrow keys. press B to start/stop ComputerBootPlayer. press H to see HiScores. press D for LevelDesigner (see in levels/*.level to edit/create fine configured levels as BrickArray, Background, Music, ...) press PAGE_UP, PAGE_DOWN to change level in actual level pack. press SPACE or ENTER for menu. select level pack using menu/F9. play alone or connect up to 4 players via TCP network. ... -
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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)
...Artist, album, and track length? All of the above? Ultimately this program will let you delete duplicates from either the left or right trees, or copy 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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mitoMaker
mitoMaker - a mitochondria assembly and annotation script
mitoMaker is a pipeline script developed to simplify the assembly and automatic annotation of mitochondrial genomes, based on raw NGS reads and an optional target reference. mitoMaker calls well known assemblers and algorithms, such as SOAPdenovo, MIRA and blast+ and parses their results providing easily readable outputs, such as FASTA, GENBANK, SEQUIN, PNG and others. General pipeline: 1-iterative De Novo assembly, with different k-mer values, trying to assemble a build that matches... -
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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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walterbot
walterbot: Virtual presence device www controlled with a raspberrypy
walterbot è un "virtual presence device" controllabile da remoto via interfaccia web. La distro Debian per architettura ARMhf6 è stata ottimizzata per "Raspberrypi B rev2". Il codice python scritto da Walter, controlla 2 motori DC tramite un TB6612FNG https://github.com/InformaticiTarantini/Pi-dro La distro è "out of the box" basta clonare l'immagine su una SD card (minimo 2Gb) proprio come si fa con raspbian. Tramite accesso ssh o direttamente dal raspberrypi, eseguire il comando "sudo ceni" per configurare la rete wireless (Si consiglia di creare una swap ed estendere il filesistem con raspi-config, ma non è indispensabile). ... -
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Technical indicators in Python
Technical indicators in Python
Technical indicators in Python For now there are: RSI - Relative Strength Index, SMA - Simple Moving Average, WMA - Weighted Moving Average, EMA - Exponential Moving Average, BB - Bollinger Bands, Bollinger Bandwidth, %B, ROC and MA envelopes When I can I will add more. If anyone wishes to contribute with new code or corrections/suggestions, feel free. -
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Wordpie Python Based Brute Force
Python Based Brute Force Password Cracking Assistant By Clownsec
...Use the keyword "stdout" to print to screen or for use with other programs like Aircrack-ng or Medusa ./wordpie.py | xargs -L 1 medusa -h 192.168.1.1 -u admin -M web-form -p ./wordpie.py -o stdout -A | aircrack-ng -b XX:XX:XX:XX:XX:XX -w - *.cap -
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pyMantis is a data-management system for (systems) biology build on the web2py framework. It features: tree based file explorer, relational db table wizzard with automated creation of user interfaces, internal and external access management, wiki, ..
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Automatic Compound Processing (AuCoPro)
Automatic compound splitting and semantic analysis of compounds
...Specifically, we will explore the possibility to create new knowledge about closely-related languages, and efficiently develop additional, more advanced resources for (a) compound segmentation; and (b) the semantic analysis of compounds; as such, the project will be divided into two interrelated subprojects, to be executed simultaneously. The focus in this project will be on Afrikaans (with Dutch as the closely-related, well-sourced language), which will lay grounds for future work on other closely-related language pairs.
