Search Results for "code alignment" - Page 2
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Showing 38 open source projects for "code alignment"
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CUDAlign
CUDAlign is a tool that aligns huge DNA sequences in CUDA capable GPUs
... Transactions on Parallel and Distributed Systems, vol. 99, PrePrints, 2012 [2] Edans Sandes, Alba Melo. Smith-Waterman Alignment of Huge Sequences with GPU in Linear Space. IPDPS 2011: 1199-1211 [3] Edans Sandes, Alba Melo. CUDAlign: using GPU to accelerate the comparison of megabase genomic sequences. PPOPP 2010: 137-146 The latest source code can be found in Github. See the MASA project at https://github.com/edanssandes/MASA-CUDAlign -
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Java Wizard Development Framework
Reduced SWING coding. New UI components. Easy layout management.
About: 1) Projects helps Java - SWING developers to develop UI forms very faster. 2) API contains reusable Components & Layouts that developers can directly use in their projects. 3) Just include project JAR file in your existing project then import and use all features (refer JavaWizardDevelopmentDocumentation) * Don't worry about Java's complex layouts, just pass your components as parameters to our "MyLayout" class and we'll do it for you. * New & pre-aligned UI components like... -
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SimplyTheBlast
Blast query sequences on a set of fasta formatted genomes
SimplyTheBlast: a small perl tool to build genes presence/absence matrices over a set of Fasta formatted genomes. This code requires: Bio::SeqIO; Bio::Perl; Bio::Tools::Run::StandAloneBlast; Bio::Seq; Bio::Tools::Blast; Bio::DB::GenBank; Bio::DB::WebDBSeqI; and BLAST 2.2.28 (blastall and formatcmd) installed and reachable from your command line Usage: perl SimplyTheBlast-Align.pl <fasta formatted seeds file> <path to genomes folder> <Alignment length threshold in %> <Alignment... -
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Multiview Lightsheet Data Reconstruction
Software for the reconstruction of multiview microscopic acquisitions
Lightsheet Microscopy (LSFM, SPIM) allows in toto imaging of large specimens by acquiring image stacks from multiple angles. To realize its full potential the data needs to be reconstructed. This software allows registration of multiview data, sample drift correction, multichannel alignment, sample-induced aberration correcting using external markers or sample inherent features. The registered data can be interactively viewed (using the BigDataViewer by Tobias Pietzsch), resaved, fused... -
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calc2booktab.latex
Script for OpenOffice/LibreOffice to convert tables to Latex-Code
UPDATE: The project was moved to github (https://github.com/schober-ch/calc2booktab). The soruceforge page won't get any bugfixes, please use the github repo if you want to try this macro. -------------------------------------------------------------------------- A Python extension for OpenOffice/LibreOffice to convert selected cells to LaTeX-Code. Its similar to Calc2Latex, but typographic formatting is more advanced (numeric columns, dcolumn-package, booktab-package) Script is tested... -
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LaTeX Table Creator
Simple Cross-platform LaTeX table creator with a GUI and console app.
A no frills cross-platform LaTeX table creator. Uses the output of standard spreadsheet software (MS Office, Libre Office, Gnumeric) to create a LaTeX tabular object that contains the specified data. Automatically detects the size of the table. The user can optionaly specify some basic formatting information, such as alignment, borders, bold headings. The user can also select if the input is tab (default) or comma delimited and can disable the tabular structure in the output. This allows... -
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NEGF Nanoscale Thermoelectric Simulator
Electrical and thermal quantum simulations of 1D nanoscale materials.
This code simulates the 1D coupled transport in nanoscale materials. Both the electrical and thermal transport are simulated using a Non-equilibrium Green's function (NEGF) to solve the wave equation. The models handle the electron-phonon, electron-electron, and phonon-phonon interactions. The electrical model is a 1D effective mass description and the thermal model is a 1D atomistic description. This code was specifically designed to investigate nanoscale thermoelectrics. More specifically... -
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NeedlemanWunsch
Fast global sequence alignment for the masses!
MOVED TO GITHUB: https://github.com/noporpoise/seq-align Global optimal sequence alignment using the Needleman-Wunsch algorithm. Aligns DNA, RNA, protein sequence and more! See our sister project local alignment using Smith-Waterman: http://sourceforge.net/projects/smithwaterman/ -
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SmithWaterman
Fast local sequence alignment for the masses!
MOVED TO GITHUB: https://github.com/noporpoise/seq-align An implementation of the Smith-Waterman local sequence alignment algorithm. See our sister project global alignment using Needleman-Wunsch: http://sourceforge.net/projects/needlemanwunsch/ -
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A peak caller for ChIP-Seq experiments that robustly handles short reads with *multiple* possible mappings. Releases are hosted here, but development source code is available at https://github.com/jakebiesinger/AREM. A Google group has been set up to help with questions from the community and for announcements of new builds. http://groups.google.com/group/arem-announcements
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Image and video acquisition for scientific applications, particularly in behavioral biology and neuroscience
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Sequence studio main package provides classes and interfaces for various kinds of sequence alignment. Differently from regular expressions it computes similarity with two initially unknown strings. Project page provides code generating applet.
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This is a visual basic activex which behaves like a command button but with a lot more functionality that are not provided by the normal one.Like Alignment of caption and picture .Credit due to base code owner, which i don't recall.