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Thread: Apps for doing Research in Linux

  1. #1
    Join Date
    Sep 2019

    Apps for doing Research in Linux

    On the topic of research and apps that help document research and write research papers in Linux (Fedora Workstation 31) this is my experience and opinion:

    LibreOffice is most compatible with the all formats for research conferences and journal paper publication, it even supports LaTex format.

    Gnome Latex works great and is one of the best apps for Latex format.

    Zotero is a great application for research for references and bibliographies organization, supports Open ID login by OpenID Foundation

    Atom is one of the best text editors for code writing, you can “hack it” (legally and supported by FOSS licence) and make it your own to best suite you + post it on github

    (I hope Microsoft will not change that and give priority to their VSCode text editor)

    DataHub (Guthub for datasets) CLI tool works in Linux, website works fine, they should have a graphical tool soon (not sure if CLI works in other Operating Systems)

    (Get Archive

    unzip archive, make file executable “chmod +rwx data-linux” or “chmod 777 data linux” and start from terminal.)

    Joplin is great note taking to do list app, supporting markdown format
    syncing with NextCloud (other sync options supported).

    Firefox one of the best browsers that respect privacy and is not chromium based.

    My Recommended Linux Operating system is Fedora Workstation with software from or just use Fedora Labs from start.
    My Recommendation based on experience for doing research in Linux (Fedora Workstation) is:
    LibreOffice + Gnome Latex + Zotero + Atom (and github) + datahub CLI + Joplin + Firefox

    Any comments or advice are welcome here, I am always happy to learn about new FOSS (free and open source software) applications that are used in research today.

    My Current Goal is to try install and test out all of this apps in the latest Ubuntu (and the next ubuntu LTS once it is out) any advice is welcome.

    Regards, Alex
    Last edited by astraadria4ari; February 19th, 2020 at 08:28 PM.

  2. #2
    Join Date
    Mar 2010
    Ubuntu Mate 16.04 Xenial Xerus

    Re: Apps for doing Research in Linux

    Please don't recommend chmod +rwx or chmod 777.
    That is a good way to get hacked. Only people who don't understand basic file/directory permissions would ever use that. 644/640 for data files and 755/750 for programs and directories. Please.

    You left out vim, by far the most useful research tool I know.

  3. #3
    Join Date
    Nov 2009
    Kubuntu 18.04 Bionic Beaver

    Re: Apps for doing Research in Linux

    well depends on what kind of research you do.i needed something like PSPP, but it needs to develop more.
    Read the easy to understand, lots of pics Ubuntu manual.
    Do i need antivirus/firewall in linux?
    Disk backup (works on newer PC): Clonezilla
    User friendly full disk backup Redobackup is now back as Rescuezilla

  4. #4
    Join Date
    Mar 2009

    Re: Apps for doing Research in Linux

    +1 for everything @TheFu said.

    I would have included git, with or without github.

    I would also have included tmux.

    While it's a little less conventional, you might be able to use ctags with documentation. Tex is one of the supported languages, for example. And

    The trio of tmux, vim and ctags are hugely effective development tools, and if you're using them anyway then there are lots of markdown/asciidoc type languages out there that can work with latex-style engines. And with github, where github does the translation and update of a web site when you check the project in.

    For those people who are willing to step outside of the "free software" realm, I also really like Sublime Text. Next to vim, it's the best text editor out there IMO.


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