Writing for Science Journals: software links

This page contains links to software for the following functions:

Data visualization
Graphics
Math and statistics
Miscellaneous software
Reference management software

Please contact me to submit suggestions for other useful software.

Note: "Commercial" software means that the developers sell the product, although they may offer a free limited-time trial version or a free version with a reduced feature set. "Free" software means that you do not need to pay anyone to use the software, but there may be restrictions on how you use it.

Data visualization

ImageJ: analysis of bitmap image data (free)
Mondrian: general-purpose data visualization (free)
Origin: graphing and analysis software (paid)
ZeGraph: open-source graphing software (free)

Graphics

GIMP (GNU Image Manipulation Program) for Macintosh computers: software for manipulating bitmap data (free)
GIMP tutorials: a list of tutorials on how to use the GIMP software (free)
Google Sketchup: 3D modeling software (free)
Open Office Draw: 2D drawing software (free)
Paint.net: analysis of bitmap images (free)
Pixlr: online photo editing software (free)
Other suggestions: a list of free alternatives to Adobe Photoshop (free)

Math and statistics

EZR GUI: a graphical interface for the R statistical software (free)
LaTeX: a graphical interface for the TeX mathematical typesetting software (free)
Lyx: a structured document processor that provides strong support for mathematics manuscripts
MathType: software for creating equations (commercial product)
Matlab: software for creating equations (commercial product)
R Software: statistical analysis software (free)
TeX: mathematical typesetting software (free)

Miscellaneous software

Adobe Reader: software for displaying PDF files
Dropbox: software for cloud-based storage
File Locker: software for cloud-based storage
Open Journal Systems: open-source software for managing a peer-reviewed journal (with some modification, you should be able to use this software to track the review and revision status of your own manuscripts or of manuscripts written by a large research group).
Wolfram Alpha: a powerful tool for searching and performing calculations with a growing body of knowledge using algorithms, equations, and various forms of visualization.

Reference management software

All of the software in this category is designed to help you manage, format, and present your literature citations.

BibTeX for Latex (free)
Bookends (commercial software)
Editfix (commercial software)
Endnote (commercial software)
JabRef for TeX or LaTeX (free)
Mendeley (free)
Reference Manager (commercial software)
RefWorks (commercial software)
Zotero (free)