See [[Annotation]] for a more in depth explanation about annotation software.
* ==== [http://freshmeat.net/projects/jarnal Jarnal] - Java based PDF annotator====* ==== [https://en.wikipedia.org/wiki/Okular Okular] - KDE Document viewer====* ==== [http://xournal.sourceforge.net/ Xournal] - GTK+ inking application====* ==== [https://gnuradio.org GNURadio] - "Provides signal processing blocks to implement software-defined radios and signal-processing systems."====** ==== Used by the Hume Center for research====* ==== [https://www.latex-project.org/ LaTeX] - Markup & typesetting system for producing high-quality documents====** The [https://github.com/josephwright/beamer Beamer] is used to create slides/posters** [https://gist.github.com/paulwalko/2b4a13ab4eae781935af619d5db15f4d Example LaTeX chem lab report] - An example chem lab report for CHEM 1045 written in LaTeX by [[User:echarlie|echarlie]]====
* ==== [http://www.mono-project.com/ Mono] - Cross platform .NET compiler and runtime====** [http://www.monodevelop.com/ MonoDevelop] GUI for Mono* ==== [http://pygments.org/ Pygments] - Source code pretty-printer that outpus to many formats====* ==== [https://www.r-project.org/ R] - The programming language for statistics====* ==== [http://pages.cs.wisc.edu/~larus/spim.html SPIM] - MIPS R2000 & R3000 simulator for educational purposes====* ==== [https://en.wikipedia.org/wiki/VirtualBox VirtualBox] - Virtualization software====* ==== [https://libvirt.org/ LibVirt] - API for manaing virtual machines under QEMU, KVM, or XEN====** [https://en.wikipedia.org/wiki/Virtual_Machine_Manager virt-manager] is a GUI for libvirt* ==== [http://xmonad.org Xmonad] - Haskell based windows manager====** [https://linx.li/ackthetxmonad.txt Ackthet's] configuration* ==== [http://bluej.org/ BlueJ] - Simple Java IDE====* ==== [https://github.com/Rip-Rip/clang_complete Clang Complete] - Popular Clang addon for vim====* ==== [https://www.gnu.org/software/screen/ Screen] - Popular terminal multiplexer====* ==== [https://en.wikipedia.org/wiki/tmux Tmux] - Popular terminal multiplexer====** [https://gist.github.com/anonymous/a22ac078259edbd19704e1b0767db556 Echarlie's .tmux.conf]* ==== [http://xoscope.sourceforge.net/ Xoscope] - Oscilloscope program====* ==== [http://xournal.sourceforge.net/ Xournal] - Notetaking/Sketching/Journal App====* ==== [http://qucs.sourceforge.net/ Qucs] - "Quite Universal Circuit Simulator"====* ==== [https://sourceforge.net/projects/qtoctave.berlios/ QtOctave] - GUI for Octave====
== Non-libre Applications ==
