# Links for OSS education/open source curricula [toc] ## Organizations - OSPO++ - https://ospoplusplus.org/ - TODO Group (through the Linux Foundation) - Industry focused, with some universities. High cost for sign up. - OSPO Alliance - European, not university focused but has some efforts - https://ospo.zone/ - Open Work in Academia - Possibly organization, based on an initial conference funded by Open@RIT (See below) - https://www.rit.edu/openworksummit/ - US Research Software Sustainability Institute (URSSI) - https://urssi.us/ - SSI - https://www.software.ac.uk/ - Sustain - https://sustainoss.org/ - CHAOSS Community - Some university involvement - IEEE (Standards body) - Some university involvement - GitHub Education (Industry) - Lots of unversity student involvement, but less at the administration level - POSSE - http://teachingopensource.org/posse/ - WSSSPE - https://wssspe.researchcomputing.org.uk/ - RESA - https://www.researchsoft.org/ ## University OSPOs - [Open@RIT](https://www.rit.edu/research/open) - - RIT’s courses and Minor in Free and Open Source Software and Free Culture - Our Co-Op program, [LibreCorps](https://openr.it/faculty/) - The experiential education programs of FOSS@MAGIC (formerly FOSS@RIT) that has weekly meetings and helps students pursue and show project work at Maker Faire Rochester, Imagine RIT and, when funding allows, academic and industry conferences. - ACROSS at UVM, Sloan + Google funded - Carnegie Mellon University, Sayeed Choudhury - CROSS at UC Santa Cruz, Sloan (OSPO only) and industry funded, grad students - ## University courses and programs - Astro @ Berkeley - JHU: https://github.com/jhu-ospo-courses - [Open Source with SLU](https://oss-slu.github.io/) - Undergrad course on software engineering - Senior capstone projects => actual sustained work, either turning into OSS or actual OSS project - (Sloan funded?) - Curricular + experiential! - Cornell - Michigan - Stanford (open source course run by Feross Aboukhadijeh) - Opensi.com - a open source course at U. Canberra - Got a few million in grant money for this - Got acquired and the project stopped - Upskilling people - justin@classsoftware.com ## Universities without formal OSPOs or university courses that have active members - UC Davis - [UC Davis DataLab](https://datalab.ucdavis.edu/) is kind of a center of gravity? - Edinburgh Unversity - Doesn't have its own OSPO, but runs this conversation through the Software Sustainability Institute - ## Experiential programs/explicitly hands on * Morehouse/AUC postbac [Open Doors x Open Source](https://datascience.aucenter.edu/odxos/) ## Open communities/teaching training - rOpenSci - pyOpenSci - rLadies etc. - Carpentries - * [How to Contribute to the Carpentries](https://docs.carpentries.org/topic_folders/maintainers/contributing.html) - Journal of Open Source Software ## People who are hubs in a wider network that help give the context - Stephen Jacobs - Richard Littauer - Carlos Maltzahn and Stephanie Lieggi - Sayeed Choudhury - Karthik Ram - Jarrod Millman - Stefan van der Walt - Fernando Perez - Chris Holdgraf - Katy Huff - Leah Wasser ## Misc links
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Fractional sketches

or, some details of how sourmash and FracMinHash work! Consider overlaps between k-mers extracted from three genomes - two that share sequence, and one that does not. From these we can calculate k-mer based similarity measures (Jaccard similarity and containment). FracMinHash sketching compresses k-mer collections while retaining set relationships This is implemented in the software sourmash.

9/1/2022
Internal postdoc opportunities in biomedical data science training at UC Davis

We seek current postdocs (or graduating PhD students) at UC Davis to join a small team of staff and researchers to do training and engagement as part of the NIH Common Fund Data Ecosystem (CFDE). This opportunity may be of particular interest to postdocs who are seeking industry positions in biotech and would like hands-on experience and training in online training, asynchronous projects, GitHub-based material development, workflow execution, and cloud computing. Unfortunately this opportunity is limited to those who are already employed at UC Davis but whose funding is expiring. Applicants must be eligible for an extension to their postdoc position; we can also potentially hire newly graduated PhDs and PhD students on filing fee. Please contact us if you are interested. Details The NIH CFDE Training and Engagement Team runs a number of hands-on training workshops; you can see our current set of materials here and here. We are interested in recruiting postdocs to help in delivering, evaluating, maintaining, and extending these lessons. In return, we will train you in a variety of computational techniques and project management approaches! The supervisor/PI is C. Titus Brown.

10/26/2021
Conda for software installation: a livestream

Advertisement On Feb 3rd, 2021 from 2:10pm PST, Titus Brown will be doing a livestream showing how to use conda to install bioinformatics software on the farm HPC. The stream will be on twitch, at https://www.twitch.tv/ctitusbrown, and he will be taking questions there. The stream will be recorded and the recording will be linked to this document. Attendance is free and you only need a (free) twitch account if you want to ask questions. The recording is now available, here! What is conda? Per https://docs.conda.io/en/latest/, conda: provides package, dependency and environment management for any language—Python, R, Ruby, Lua, Scala, Java, JavaScript, C/ C++, FORTRAN, and more.

2/11/2021
NSF LoS

[Letterhead] Dear NSF Proposal Review Committee: If the proposal submitted by Dr. Daniel S. Katz entitled “HDR Institute: Harnessing the Data Revolution through High Throughput Science and Engineering Expertise” is selected for funding by NSF, it is my intent to collaborate and/or commit resources as detailed in the Project Description or the Facilities, Equipment and Other Resources section of the proposal. Sincerely, [Your name]

1/15/2021
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