Displaying 1 to 20 from 38 results

XEML

  •    DotNet

Welcome to the XEML project page. This project aims to realize a standard for the control and documentation of experimental design and growth, with a maximum of power in terms of data processing, not only to obtain reliable molecular and physiological data, but also to make plant

Bio Workflow Engine

  •    DotNet

BioWF is a scientific workflow project which allows for easy construction of bioinformatic applications through drag/drop style creation.

Protein Insight

  •    CSharp

The Protein Insight is a molecule visualization tool. It's fastest and easiest tool you have used and developed in native C++, C++/CLI, C#.

.NET Bio

  •    DotNet

.Net Bio is a language-neutral bioinformatics toolkit built using the Microsoft 4.5 .NET Framework to help developers, researchers, and scientists.




BioSharp

  •    DotNet

BioSharp is a pure and test-driven .NET library for use in bioinformatics and related fields.

DNA Sequence Annotation Studio

  •    

Sequence Annotation Studio can be used to perform the following: 1. View the complete sequence with zoom in / zoom out facility. 2. View the annotations (all or selectively). 3. Create new annotation and edit or delete existing ones. 4. Save modified sequence in GenBank ...

BOW - Bioinformatics On Windows

  •    

A group of tools run on Windows for Bioinformatics. Include ported tools from Linux (e.g. BWA, SAMTOOLS), and later original Windows applications.

jbrowse - A modern genome browser built with JavaScript and HTML5.

  •    Javascript

To install jbrowse, most users should visit http://jbrowse.org/install and download a zip file such as JBrowse-1.13.0.zip. See instructions at https://jbrowse.org/code/latest-release/docs/tutorial/ for a tutorial on setting up a sample instance. Once you have an instance up and running, http://gmod.org/wiki/JBrowse_Configuration_Guide is the comprehensive reference guide to JBrowse configuration.


bionode - Modular and universal bioinformatics

  •    Javascript

To use bionode as a command line tool, you can install it globally with -g. Or, if you want to use it as a JavaScript library, you need to install it in your local project folder inside the node_modules directory by doing the same command without -g.

taxize - A taxonomic toolbelt for R (https://ropensci.github.io/taxize/)

  •    R

taxize allows users to search over many taxonomic data sources for species names (scientific and common) and download up and downstream taxonomic hierarchical information - among other things.The functions in the package that hit a specific API have a prefix and suffix separated by an underscore. They follow the format of service_whatitdoes. For example, gnr_resolve uses the Global Names Resolver API to resolve species names. General functions in the package that don't hit a specific API don't have two words separated by an underscore, e.g., classification.

jvarkit - Java utilities for Bioinformatics

  •    Java

Each tool is compiled independently of each other. See the documentation for each tool at http://lindenb.github.io/jvarkit/. All the pages should include a paragraph titled 'Download and Compile' You shouldn't try to compile all the tools because some of them are not tested, deprecated, or just too specific to my lab.

eol-globi-data - Global Biotic Interactions provides access to existing species interaction datasets

  •    Java

Please see http://globalbioticinteractions.org or http://github.com/jhpoelen/eol-globi-data/wiki for more information . Unless otherwise noted, source code is released under GLPv3 and data is available under Creative Commons Attribution 4.0 International License. We are trying to do the best we can to ensure that the references to the original data sources are preserved and attributed. If you feel that there's better ways to do this, please let us know.

yesterday-i-learned - Brainfarts are caused by the rupturing of the cerebral sphincter.

  •    Shell

If you have any one-liner cool facts that aren't already here, submit a PR so we both learn! Include your citations inline as link(s). Unfortunately, according to Github, I cannot stop you from forking this repository. So, whatever licence that is, whatever licence this inherits.

NtSeq - JavaScript (node + browser) bioinformatics library for nucleotide sequence manipulation and analysis

  •    Javascript

NtSeq is an open source Bioinformatics library written in JavaScript that provides DNA sequence manipulation and analysis tools for node and the browser. More specifically, it's a library for dealing with all kinds of nucleotide sequences, including degenerate nucleotides. It's built with the developer (and scientist) in mind with simple, readable methods that are part of the standard molecular biologist's vocabulary.

semester-biology

  •    Jupyter

This is a forkable set of teaching materials for teaching biologists how to work with data through programming, database management and computing more generally. This repository contains the complete teaching materials (excluding exams and answers to assignments) and website for a university style and self-guided course teaching computational data skills to biologists. The course is designed to work primarily as a flipped classroom, with students reading and viewing videos before coming to class and then spending the bulk of class time working on exercises with the teacher answering questions and demoing the concepts.

chainer-chemistry - Chainer Chemistry: A Library for Deep Learning in Biology and Chemistry

  •    Python

Chainer Chemistry is a collection of tools to train and run neural networks for tasks in biology and chemistry using Chainer[1]. It supports various state-of-the-art deep learning neural network models (especially Graph Convolution Neural Network) for chemical molecule property prediction.

Bio.jl - Bioinformatics and Computational Biology Infrastructure for Julia

  •    Julia

BioJulia is a bioinformatics and computational biology infrastructure project, built with and for the julia language for technical computing. This package Bio is the flagship package of the project. Bio is actually better described as a meta-package. It actually consolidates many other smaller packages in the BioJulia package ecosystem and makes them easier to install and use together, with less worry about version compatiblity and dependencies.

BioAlignments.jl - Sequence alignment tools

  •    Julia

BioAlignments provides alignment algorithms, data structures, and I/O tools for SAM and BAM file formats. If you are interested in the cutting edge of the development, please check out the master branch to try new features before release.