Search Results for "multiple sequence alignment"
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Showing 18 open source projects for "multiple sequence alignment"
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OpenSign
🔥 The free & Open Source DocuSign alternative
The premier open source document signing solution (DocuSign alternative). Welcome to OpenSign, the premier open source docusign alternative - document e-signing solution designed to provide a secure, reliable and free alternative to commercial esign platforms like DocuSign, PandaDoc, SignNow, Adobe Sign, Smartwaiver, SignRequest, HelloSign & Zoho sign. Our mission is to democratize the document signing process, making it accessible and straightforward for everyone. -
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Billiards Covers
This zip jar contains the current coverings of periodic paths.
Researchers, Mathematicians and Enthusiasts. Download "Billiards Covers" to see the most current list of periodic paths in triangles. Download "Billiards Everything" to discover new periodic billiard paths, an unresolved problem from 1775! Follow "The Great Periodic Path Hunt" at gwtokarsky.github.io for the latest news. Email tokarsky@ualberta.ca for feedback. -
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ReViMS
ReViMS, a 3D volume rendering tool for light-sheet/confocal microscopy
Reconstruction and Visualization from Multiple Sections (ReViMS), an open-source, user-friendly software for automatically estimating volume and several other features of 3D multicellular aggregates (i.e., cancer spheroid, zebrafish, fruit fly). ReViMS requires a z-stack of 2D binary masks, obtained by segmenting a sequence of fluorescent images acquired by scanning the aggregate along the z axis, using a confocal or a light-sheet fluorescent microscope. -
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Augmentor.jl
A fast image augmentation library in Julia for machine learning
A fast library for increasing the number of training images by applying various transformations. Augmentor is a real-time image augmentation library designed to render the process of artificial dataset enlargement more convenient, less error prone, and easier to reproduce. It offers the user the ability to build a stochastic image-processing pipeline (or simply augmentation pipeline) using image operations as building blocks. In other words, an augmentation pipeline is little more but a... -
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Nexplorer is a web-based phylogenetic browser, used to view and edit comparative data, and ideal for creating publication-quality views in which the tips of a tree are aligned with the rows of a character matrix (e.g., a sequence alignment).
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x-spreadsheet
A web-based JavaScript (canvas) spreadsheet
...These parameters are loaded in the first instantiation, and can also be set later, but it is recommended to modify and load in advance the changes that you need to change. You can adjust the number of columns displayed by default len, AZ, the default width of each column, the default width widthof the left sequence column indexWidth, and the default minimum width of each columnminWidth. You can adjust the style of table rendering. Some of the features include undo and redo, paint format, clear format, format, font, font size, font bold, font italic,, underline, strike, text color, fill color, borders, merge cells, align, text wrapping, freeze cell, functions, resize row-height, col-width, copy, cut, paste, autofill, insert row, column, delete row, column, hide row, column, multiple sheets, print, and data validations. -
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Jack LIRE (Linked Record)
Quantum universal object system with referencing and genetics
Jack LIRE (Linked Record) is a quantum database-backed life-long text record diary with referencing (linking) between records, and a data library for life-long keeping of files such as documents, photographs, music and more. The diary records are fully searchable. Files can be mentioned in diary records to preserve memories, document knowledge and ideas, and more. Massive numbers of diary records and files can be permanently kept. A database located on one computer can be accessed from... -
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GMOL
A tool for 3D genome structure visualization
GMOL is an application designed to visualize genome structure in 3D. It allows users to view the genome structure at multiple scales, including: global, chromosome, loci, fiber, nucleosome, and nucleotide. This software was built upon the pre-existing Jmol package by Prof. Cheng's group. The software is developed in Prof. Jianlin Cheng's Bioinformatics, Data Mining and Machine Learning Laboratory in the Computer Science Department at the University of Missouri - Columbia, USA. The project... -
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Digit Span Tester
A Task / Test of Working Memory for Cognitive / Neurosciece Research
To perform automated digit span tests to evaluate on working memory function, especially in cognitive / neuro research. Hope to reduce practice effects and eliminate the need to use clinical assessments in research settings. Requires Java 7 or newer. Note that this is a research tool, and was not intended (and not evaluated) for clinical assessment. FINAL VERSION: If you want more features, download the source and hack it yourself. Apologies to those who've asked for help and got no... -
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Mauve computes and interactively visualizes genome sequence comparisons. Using FastA or GenBank sequence data, Mauve constructs multiple genome alignments that identify large-scale rearrangement, gene gain, gene loss, indels, and nucleotide substutit
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ADOMA stands for: Alternative Display Of Multiple Alignment. ADOMA can create four different displays of a multiple sequence alignment: a ClustalW alignment in HTML format, a simplified ClustalW alignment in HTML and/or txt format and a colored ClustalW alignment in HTML format. For examples of these outputfiles check the screenshots. ADOMA uses ClustalW to create the multiple alignment from DNA or protein sequences and displays them slightly different than the normal output of ClustalW. ...
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chipexo
model based analysis of ChIP-exo data
...When applied to yeast Reb1 and human CTCF ChIP-exo data, MACE is able to define TFBSs with higher sensitivity, specificity and spatial resolution, as evidenced by multiple criteria, such as motif enrichment, sequence conservation, nucleosome positioning, and open chromatin states. -
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NOTE: developement of this project has moved to GitHub http://github.org/matthuska/biasviz/ BiasViz is a Java applet for visualization of amino acid bias in multiple sequence alignments.
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Firefly UML
A free, easy-to-use and user-friendly Java-based UML editor.
Firefly UML is a 100% pure Java application designed to create and edit UML conform diagrams. With class diagrams, sequence and instance diagrams, Firefly UML provides a solid selection from the vast range of existing UML diagram types. Firefly UML is really easy to learn as it provides you multiple ways of access to the same function - be it mouse action, hotkey, context menu or toolbar icon. And the best thing is: once you have learned how to handle one type of diagram, you also have learned how to deal with the other diagram types, because they all follow the exactly same user interaction patterns. ... -
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Optical ray tracing library based on MATLAB environment Now working on the simple raytracing simulation. Documents are not ready yet. NEW UPDATE : ray generation function, other bug fix and multiple ray treatment
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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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GATA is a graphic alignment tool for comparative sequence analysis. It makes use of BLAST to graphically align two DNA sequences, creating box- line- box representations of window scored local alignments. GATA also displays extensive GFF gene annotation.
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