Useful Links Collection by Amanda from Griffith Hacky Hour

Amanda Miotto from Griffith Hacky Hour  has collected together a great set of links that she often uses or refers people to at the Hacky Hours her and her team run. Thanks for sharing Amanda!

 

Bioinfo

Bioinformatics Tutorials | Phil Chapman’s Blog
Nature in Code by Marcel Salathé [Leanpub PDF/iPad/Kindle]
QFAB members’ clinics in bioinformatics, biostatistics and biodata | QFAB BIOINFORMATICS
ROSALIND | learn BioInfo
Degust

 

Chem

Marvin JS – v17.22.0

 

Data Science

[Discuss] Programming language by research discipline
Becoming a Data Scientist – Curriculum via Metromap ← Pragmatic Perspectives
Data Intro for Librarians: Introduction to Data
daattali/addinslist: Discover and install useful RStudio addins
DataCamp: Learn R, Python & Data Science Online
early beginner | Difficulty Levels | Data Sci Guide
Exploratory Data Analysis Course Notes
Getting Started with swirlify
Home Page | CyVerse
Python vs. R: The battle for data scientist mind share | InfoWorld
PythonDataSciHandbookJupyter
R Data Import/Export
swirldev/swirl_courses: A collection of interactive courses for the swirl R package.
Tamara Munzner: Talks
The Architecture of Open Source Applications: VisTrails
Videos | VIZBI
Design with Intent | Insights, methods and patterns for designing with people, behaviour and understanding
Chart.js | Open source HTML5 Charts for your website
Recommended Resources for Beginners | Data Sci Guide
Image processing in Python — scikit-image

 

Data Vis

Knight Lab
Search for Charts by Data Visualization Functions
visgap.pdf

 

Dir of Tools and Repos

Browse by subject | re3data.org
Copy of 400+ Tools and innovations in scholarly communication – Google Sheets
Course Resources | Intersect Australia Limited
Datasets | Kaggle
openscience.org/links/
Research Tools | UTS Library – University of Technology, Sydney
Welcome // | DiRT Directory
Welcome // | DiRT Directory
Optical character recognition – Wikipedia
Open Knowledge Maps – A visual interface to the world’s scientific knowledge
Science
Open Knowledge: Projects
The Open Data Handbook
ckan – The open source data portal software
Coding Resources | Women Who Code

 

Eco

Free and Open Access to Biodiversity Data | GBIF.org
SunPy
What is Dr Climate? | Dr Climate
ZoaTrack – Free Animal Tracking Software
Education | DataONE
Macroeco: Ecological pattern analysis in Python — macroeco 1.0 documentation

 

File Reshaping

CSVshare
Tabula: Extract Tables from PDFs
Whiteboard Picture Cleaner – Shell one-liner/script to clean up and beautify photos of whiteboards!

 

Geo

Geospatial data and metadata – ANDS
Getting Started

 

Git & Tech Writing

Contribute to someone’s repository
Front matter · GitBook
github free programming books
HackMD – Collaborative markdown notes
The Journal of Open Source Software
Who is this for? · GitBook
Github for the useR
Git Flow
On undoing, fixing, or removing commits in git
GitHub for Beginners | GitHub Resources Library
GitHub Guides
Git Tutorial – Try Git

 

HASS

All Those Shapes — Google Arts & Culture
Data Visualization for Social Science
Discursis :: About
Google Arts & Culture
Google Expeditions
Humanities Networked Infrastructure – HuNI
Omeka
Word Tree / Fernanda Viegas & Martin Wattenberg
2018 DMRC Summer School – Workshops – Digital Media Research Centre

 

HPC

Gnu Parallel – Parallelize Serial Command Line Programs Without Changing Them
HPC in a day
HPC in a day
HPC in a day: Logging In
Nectar training
Training Material – User Support Documentation – Pawsey Documentation
Training – National Computational Infrastructure
QRIScloud Documentation
HPC self-help and support – University of Southern Queensland
USQ HPC cheatsheet
Pawsey Online Course: Developing Parallel Codes with MPI :: The Pawsey Supercomputing Centre
Pawsey Online Course: GPU Training Essentials :: The Pawsey Supercomputing Centre

 

IT Misc

Atom
Code Carabiners: Essential Protection Tools for Safe Programming – O’Reilly Radar
Code for a Living – Stack Overflow Blog
Episodes – [Talk Python To Me Podcast]
How To Get Started With The Ubuntu Linux Distro | Gizmodo Australia
jakevdp/WhirlwindTourOfPython: The Jupyter Notebooks behind my OReilly report, “A Whirlwind Tour of Python”
Research Computing | File Transfers with FileZilla | ResearchIT
The Unix Workbench
Weka 3 – Data Mining with Open Source Machine Learning Software in Java
Hard Coding Concepts Explained with Simple Real-life Analogies
R for Excel users – Rex Analytics
Rex Blogs – Rex Analytics
Torfs+Brauer-Short-R-Intro.pdf
CodeNewbie
GNU Parallel tutorial
Web designing tutorial list
one.
 

Cheatsheets

MiscCheatsheets

 

Lessons and Books Misc

Free Courses Online | Open2Study
Subjects – OpenStax
Greg Wilson | DataCamp
Browse Online Courses – FutureLearn
 

Math

Science:Math Exam Resources – UBC Wiki

 

Misc Cool

Calling Bullshit — Syllabus

 

Stats Help

5minuteStats
Cross Validated
Which Stats Test – SAGE Research Methods

Altmetric- social media tracking PublicationsAsk the ODI Australian NetworkCoffee with Recovering Academics – Beth M. Duckles – MediumInsights – Stack Overflow BlogLabs and Tools – NectarMonthly Tech Talk Pages – Monthly Tech Talk (Melbourne) | MeetupOpenWetWarePLOS Collections: Article collections published by the Public Library of ScienceScience Hack Day BrisbaneZooniverse

 

For Coordinators

Explore Erudite – BD2K Training Coordinating Center
mozilla-studygroup-leads-may-2017 | Etherpad
Outline of academic disciplines – Wikipedia
Repeat After Me – by Maki Naro
The Carpentries Community Cookbook documentation
Carpentries Handbook — Carpentries Handbook documentation

Tinkercad | Create 3D digital designs with online CADAbout – data.gov.au

SoftwareCarpentrySetup

Submissions
Configuration Problems and Solutions · swcarpentry/workshop-template Wiki

Image analysis for biologistsSecure storage – digital dataCloud Genomics

 

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13 problem owners and helpers this week

Busy week with questions on R, C++, data viz, Python, machine learning and sparse matrix representations. Five new faces with questions to ask. And great to see so many helpful helpers donating their time.

Who is a helper and who has questions?

hacky_hour-2017-05-23-Jess_Steffen

This week Jess who was writing a macro in ImageJ, and Steffen who had a question on compiling HPC code but was also helping Jess. It’s great when our Hacky Hourers help each other!

hacky_hour-2017-05-23-Emily_James-small

Also, Emily, who wanted to code some maximum likelihood estimations in R, here with our regular resident R expert, James.

Find us

It’s easy to find us at the regular Tuesday 3pm at Nano’s Cafe UQ Hacky Hour. Just look for the sign.

hacky_hour_sign

This week at Hacky Hour …

This week at Hacky Hour UQ, newbie Danni who wants to script HPC jobs & regular Iva who’s having trouble with C compilers. Felicity (not shown) who is doing a digital librarian residency in Faculty of HASS popped in to provide library/data management advice.

hacky_hour-2017_04_17-1-small