Search Results for "alignment" - Page 20
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Showing 522 open source projects for "alignment"
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WriteOn is a advanced notepad program that easily allows you to edit and work with several formats of word documents.
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MUMmerGPU is a high-throughput DNA sequence alignment program that runs on nVidia G80-class GPUs. It aligns sequences in parallel on the video card to accelerate the widely used serial CPU program MUMmer.
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LaJolla can perform 3D alignments of RNA and protein structures. It is fast, simple to use and well tested. LaJolla is successfully published in a peer reviewed journal. !!!!!! PROJECT MOVED TO GITHUB !!!!!! Please check out http://raphaelbauer.github.io/lajolla/
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RADAR stands for Rapid Automatic Detection and Alignment of Repeats in protein sequences. RADAR identifies gapped approximate repeats and complex repeat architectures involving many different types of repeats. Radar has moved to github (https://github.com/AndreasHeger/radar)
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This is a utility to convert a set of fasta formatted sequences along with output from ELAND or SOAP (and other next generation sequence alignment in due time) to make them viewable using eagleview.
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An efficient implementation of the Smith-Waterman algorithm that takes advantage of SIMD instruction sets in modern CPUs. The Smith-Waterman algorithm is used for sequence alignment in bioinformatics.
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AlViz is a research prototype for visual ontology alignment implemented as multiple-view plug-in for Protege using J-Trees and Graphs. Based on similarity measures of an ontology matching algorithm AlViz helps to assess and optimize the alignment results
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NGSView is a generally applicable, flexible and extensible next-generation sequence alignment editor. The software allows for visualization and manipulation of millions of sequences simultaneously on a desktop computer, through a graphical interface.
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Go from Code to Production URL in SecondsSkip the Kubernetes configs. Cloud Run handles HTTPS, scaling, and infrastructure automatically. Two million requests free per month.
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CARAT
CARAT: Flash course evaluation rubric tool UTTC TeleCampus
CARAT (Course Analysis, Review and Alignment Tool) a Flex3 app for rubric-based evaluation. 508 compliant, CSS-based, XML-driven for content. Database output shown for c#/.NET to SQL2005. Released under CC 3.0 by-nc-sa license by UTTC CDT. -
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This is a Perl module for doing snp analysis based on shotgun sequencing reads and a reference genome sequence. Its primary input is the cigar alignment format outputted from ssaha2.
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Batman-Seq: Basic Alignment Tool for MAny Nucleotides. A fast BWT-based short reads mapping tools which uses additional statistical method to model error profile of the sequencing experiment.
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ReAlignerV is an alignment tool focusing on genomic nucleotide sequences upstream of genes. ReAlignerV integrates TRANSFAC(R) Match(TM) results to detect the conserved TFBSs. ReAlignerV is robust against transposable element insertions.
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BACContigEditor is a simple sequence alignment editing tool, written in Java. It is originally developed for finishing BAC shotgun sequencing projects, but the program could be easily extended to the whole genome project.
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PepT-IDE is a protein analysis tool that is used for multiple sequence alignment, 3D visualization and displaying protein contact maps for protein sequences and structures. It also has feedback communication between the different views of the protein.
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Xat is named after X-species Alignment Tool. It is designed to be a cross-species cDNA-to-genome alignment software. It is fast and accurate, and optimized for genome-wide mapping.
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Spectre for mass spectrometry. (Quantitiave) analysis of multiple ls-ms(ms) runs, using mzXML import of raw data. (working on mzDATA). Provides filters, alignment- and export tools.
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SWIFT is a program for fast local alignment searching, guaranteeing to find so called epsilon-matches. An epsilon-match is a local alignment over a given length with an error rate of at most epsilon.
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...The user can select a source .rtf file and then choose a destination file(.pdf). The RTF file is converted to PDF file. Based on vPDF @ http://sourceforge.net/projects/vpdf but supports text alignment.
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Scripts to implement Hierarchical Annotation-Dependent Alignment (HADA) protocol for sequence alignment, and related functions.
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This is a simple program for alignment and rotation of images, that will be used as a preprocesor in 3D volumetric reconstruction of bodies using OpenGL.
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aln2dist is a standalone program that uses a multiple sequence alignment to calculate a set of distance matrices and a set of distance restraints (lower and upper bounds). Also require the pdb structure files of homologous proteins to be used as models.
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POA is Partial Order Alignment, a fast program for multiple sequence alignment in bioinformatics. Its advantages are speed, scalability, sensitivity, and the superior ability to handle branching / indels in the alignment.
