Tools

Organizing

Pinboard

Pinboard is a social bookmarking website that describes itself as "a fast, no-nonsense bookmarking site for people who value privacy and speed." The service lets users bookmark content from any web browser, offers browser plugins, and a way to save open tabs in a minimal, fast, and secure environment. You can connect up to three Twitter accounts (search the archives of your tweets), and configure Pinboard to automatically mirror public bookmarks from your accounts on Instapaper, Pocket and Readability. All of your bookmarks from Delicious, Google Bookmarks, Diigo, Firefox, Safari, and many other sources can be imported to your Pinboard account. Everything on the site is available as an RSS feed and you can import and export data in a wide variety of formats. Unlike other popular bookmarking services, Pinboard caters to users who value privacy. You do not need to have any public bookmarks to use the site. Pinboard does not serve any third-party content to logged-in users—that means no scripts, images, analytics trackers, and no ads. You do not have to provide any personally identifying information to open a Pinboard account. The only requirement is a working email address. There is a third-party clients. There is a one time fee of $11. In addition to the basic features, Pinboard offers a bookmark archiving service for an annual fee of $25. The site will crawl and store a copy of every bookmark in your account, and display a special icon you can click to see a cached copy. If the page you bookmarked goes offline, you'll still be able to see the archived copy indefinitely. Pinboard is a small site that features easy access to customer support and communicating with the developer. He is easy to reach through Twitter, IRC or email,.

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Gathering

WebClust

WebClust is a meta search engine that clusters documents into meaningful groups. WebClust presents search results in a horizontal topical arrangement, in addition to a single vertical list. WebClust's data mining technique is meant to make sense of large amounts of textual information extracted from the web, including digital libraries.

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Visualization

SylvaDB

SylvaDB is a graph database management system. It allows users with no knowledge in graph theory to model, collect, query, and analyze data in a network structure. SylvaDB provides tools for easy creation of schemas and modelling, automatic forms creation to input the data, collaborative features, a visual query editor, global and local search, reports charts generation, networks metrics, and visualizations tools.

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Analysis

Textpresso

A text-mining system for scientific literature. Textpresso's two major elements are (1) access to full text, so that entire articles can be searched, and (2) introduction of categories of biological concepts and classes that relate to objects (e.g., association, regulation, etc.) or describe one (e.g., methods, etc).

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Collaboration

BuddyPress

BuddyPress is a variant of WordPress that includes social networking features.

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Publishing

Zotpress

Zotpress is a WordPress plugin that enables users to easily add Zotero citations to a WordPress site by using a special syntax that turns a Zotero citation key into a well-formatted inline citation and bibliography, based on the data stored in Zotero.

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Interpretation

Event Structure Analysis

Developed at Indiana University, Event Structure Analysis is made up of three components: Ethno, prerequisite analysis, and composition analysis. Ethno is an on-line Java program that helps you analyze sequential events; prerequisite analysis produces a diagram showing how events are connected; composition analysis involves coding agent, action, object, and other characteristics of each event.

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Web development

4th Dimension

4th Dimension is a graphic environment for developing database-driven single-user, client/server and Web applications. 4th Dimension Standard Edition is an excellent tool to help new database developers rapidly build professional single-user, client/server and Web applications on both the Windows and Mac platforms. It offers: - An affordable price - Many ready-to-use application templates - Unlimited deployment of single-user applications in interpreted mode - Projects started with 4th Dimension Standard Edition can be continued with 4th Dimension Developer Edition with 100% compatibility

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Text Engineering Software Laboratory

Tesla is a virtual research environment for text engineering - a framework you can use to create experiments in corpus linguistics, and to develop new algorithms for natural language processing. Tesla is a client-server application, which can be used by individual researchers as well as by workgroups. The screenshot below shows the experiment editor of Tesla's Client application.

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Enrichment

Zotero

Zotero is a free tool that collects, manages and cites research sources. It stays on your web browser where you do your work and it's easy to use. It's being downloaded as a firefox extension, used with the chrome and safari browsers or used as a standalone tool. It allows you to attach pdfs, notes and images to your citations, organise them into easily searchable collections for different projects, and open office using any of over 2800 citation styles. references can be added to a zotero library in many different ways: directly from databases, journal websites, google scholar or the library catalogue, by referencing file import ( for example from an Endnote library), by dragging in pdfs from your hard drive, and by entering them manually.

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