Documenting

American Journal Experts

American Journal Experts (or AJE) is an author services company.

Authorea

Online collaborative writing, citing, hosting of data and publishing.

Avogadro

Avogadro is an advanced molecule editor and visualizer

bioRxiv

bioRxiv is an open access preprint repository for the biological sciences

CERN Open Data

Physical Science and Technology

A portal that hosts several records, released as open data by the LHC experiments.

Cite This For Me

Biology

Cite This For Me is one of the most popular citation tools today.

Colaboratory

A data analysis tool that combines text, code, and code outputs into a single doc

Confluence

Biology

Confluence is a collaboration software program.

Coot

Biology

Macromolecular model building based on X-ray data.

Crossref Simple Text Query

Biology

Batch retrieving DOI's based on free style bibliography

Crystallography Open Database

The Crystallography Open Database is an open database of crystal structures.

DataBank

An analysis and visualisation tool that contains collections of time series data.

Datahero

Software platform that can be used to create data visualization and dashboards.

Dataverse

Open source research data repository software

DataWarrior

A Free Cheminformatics Program for Data Visualization and Analysis

Dedoose

Biology

A cross-platform app for analyzing qualitative and mixed methods research.

Desmos

Physical Science and Technology

An advanced graphing calculator as a web application and a mobile application.

Draft

Distraction-free writing

El-MAVEN

Biology

An open-source high throughput metabolomics tool

Emerald Cloud Laboratory

Biology

Web-based life sciences lab to run experiments from anywhere in the world.

EndNote

Biology

Citation management software program for Mac and Windows.

eSurveys Pro

Biology

A software solution that enables them to conduct online surveys.

EyeWire

Biology

A game to map the 3D structure of neurons to contribute to scientific discovery.

Galaxy

Biology

An open web-based platform for biomedical data integration and analysis

Genome Compiler

Biology

A free, all-in-one online software platform for DNA design.

GIMP

Biology

Image editor.

GNU Octave

Biology

Octave is software featuring a high-level programming language, primarily intended for numerical computations. It is the major free alternative to MATLAB.

gnuplot

Biology

gnuplot is a command-line utility for drawing graphs as well as visualizing and fitting data.

Google Forms

Biology

Easily create custom forms for surveys and questionnaires.

Google Ngram Viewer

Biology

Chart frequencies of words/short sentences in Google Books

GraphPad Prism

Analysis and graphing solution designed for scientific research

GROMACS

Physical Science and Technology

A software package for the simulation of biological macromolecules.

iAnnotate

Read, annotate, and share PDFs and more.

Image Map Tool

Create all types of image maps.

Import.io

Biology

A data extractor that requires no coding, turning the web into data

InContext

Navigate through RDF relations in a smooth and understandable way.

Isidore

Sociology

A search engine that provides access to digital data in humanities and social sciences.

JCB DataViewer

Biology

A web-based, multi-dimensional image data-viewing application.

JournalMap

Biology

A free and open web-based platform for finding scientific literature.

Jupyter Notebook

To create and share documents that contain live code, equations, media, and text

KNIME

KNIME a free and open-source data analytics, reporting, and integration platform

knitr

knitr is an engine for dynamic report generation with R.

Lead Discovery

It freely analyze data and create analytic applications and dashboard.

LimeSurvey

Biology

A survey software to create online surveys

Maple

Physical Science and Technology

A tool for symbolic numeric computation and visualization.

Marvin

A full-featured chemical editor for making science accessible on all platforms

Matlab

Sociology

Multi-paradigm numerical computing environment & proprietary programming language.

MikTex

Biology

Free distribution of TeX/LaTeX typesetting system with a set of related tools.

Molden

Physical Science and Technology

A general molecular and electronic structure processing program

NWChem

Physical Science and Technology

An open source computational chemistry program package developed at EMSL/PNNL.