Tutorials and Guides: A curated list

This post is a curated list of my favourite tutorials and guides because “that one where Hadley Wickham was talking about cupcakes” isn’t the most effective search term. You can find my list of cheat sheets here. There are a lot of great resources on data science (I’ve included my top picks), so I don’t intend to reinvent the wheel here. This is just a list of my favourites all laid out so I can find them again or point other people in their direction when it comes up in conversation. I’ve also added a number of the “how to” type posts I’ve written on this blog as I often answer an enquiry in that format.

Data Science

Tutorials and videos: General

Puppets teach data science too

  • Render a 3D object in R. I have no idea where I would ever use this information in my practice, but it’s presented BY A PUPPET. Great fun.
  • DIY your data science. Another offering from the puppet circle on the data science venn diagram.



Work Flow

  • Guide to modern statistical workflow. Really great organisation of background material.
  • Tidy data, tidy models. Honestly, if there was one thing that had been around 10 years ago, I wish this was it. The amount of time and accuracy to be saved using this method is phenomenal.
  • Extracting data from the web. You found the data, now what to do? Look here.

Linear Algebra



Machine learning

Data visualisation

Natural Language Processing

I’ll continue to update this list as I find things I think are useful or interesting.

Edit: actually, “that one where Hadley Wickham was talking about cupcakes” is surprisingly accurate as a search term.

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It got wet

NSW got wet this weekend. In our own particular case we lost a large amount of our driveway and several paddocks spontaneously attained lake status. So there was nothing else to do but to poke around and see what I could turn up in the historic record (find yours here).

Some locals recorded up to 250mm in 24 hours this weekend. I thought that was an extraordinary amount until I checked the data (only available up until April this year so far, alas).

It turns out that sometime in the late sixties the local rainfall station recorded an extraordinary 392mm in 24 hours. Now that’s an outlier…!

I’ll invest in a new pair of gumboots just in case.

Smooth scatter plot rainfall

If you’re into this sort of thing, the plot was done using the “smoothScatter” function in R. It’s a change from the usual time series line chart. I think I’m a convert.

Continuous, Censored and Truncated Data: what are the differences and do you need to care?

Whenever I work with someone whose statistical or econometric experience has been more practical than theoretical, two things happen. The first is that the poor person inexplicably develops a twitch whenever I launch into an enthusiastic tangent that requires a sheet of graph paper and extensive hand waving.

The other thing that inevitably happens is that the digression comes to an end and the question is asked “but does that matter in practice?”

When it comes to model section, the difference between data types really does matter. You may make choices one way or another, but understanding the differences (both obvious and subtle) lets you make those choices understanding that you do have them.

This post is a cliff-notes version of the issue. Maybe you’ve heard of these differences in data types and just need a memory jog. Maybe you’ve not heard of them at all and want somewhere simple to start.

Continuous data is pretty simple: it’s data that can lie anywhere on the real line with a positive probability. That is, it can be anywhere from very large negative numbers to very large positive numbers. The normal distribution is an example of continuous data.

Truncated data, on the other hand, is data which is continuous but has the added complication of only being observed above or below a certain point. The classic example suggested by Greene is income [1]. One example would be if we only surveyed the income of those earning above the tax-free threshold: then we would have truncated data.

Censored data is similar. It’s an issue not of observation but in the way the data is sampled. Some parts of the distribution are obscured, but not ignored. The survey may, for example, interview all income levels, but only record those above the tax free threshold and describe the rest as “under the tax threshold” rather than giving the income in dollar terms. In this case all parts of the distribution are reported on, but the level of information differs above or below a threshold.

Most people are aware of issues modelling categorical data using techniques designed for continuous data. However, censored and truncated data also need special treatment. A lot of the data we deal with has a natural truncation point: distance isn’t negative, prices are not (well, hardly ever) negative. Recognising that you may be dealing with truncated or censored data is an important part of initial data analysis. For a thorough discussion, see W.H. Green’s chapter on the subject here.

In practice, continuous data methodologies may work quite well for these types of data as long as there isn’t a large amount of data sitting at or near the truncation or censoring point (which is often zero).

Test scores are something I’ve worked a lot with. In my experience, once the proportion of test scores began to approach around 20% zeros, I needed to switch over to models designed for the issue. In the 10%-20% range I will often try a few of different models to see which is most appropriate. That’s just a general rule of thumb- your mileage may vary.

Hand waving and furious graph-paper drawing aside: yes in this case knowing the differences does matter in practice.


[1] W. H. Green, Econometric Analysis, is a classic text and here I’m looking at p. 756 in the fifth edition. There are three copies of this book living in my house. Definitely worth the investment if you are looking for either a classic text covering everything econometrics or a useful TV stand. What can I say? We were young and poor and a matched set of texts made up for deficits in our furniture budget. I’ve owned this book for nearly twenty years and I still use it- even long after we can afford furniture.

Modelling Early Grade Education in Papua New Guinea

For several years, I worked for the World Bank analysing the early grade education outcomes in a number of different Pacific countries including Laos, Tonga and Papua New Guinea, amongst others. Recently, our earlier work in Papua New Guinea was published for the first time.

One of the more challenging things I did was model a difficult set of survey outcomes: reading amongst young children. You can see the reports here. Two of the most interesting relationships we observed were the importance of language for young children learning to read (Papua New Guinea has over 850 of them so this matters) and the role that both household and school environments play in literacy development.

At some point I will write a post about the choice between standard ordinary least squares regressions used in the field and the tobit models I (generally) prefer for this data. Understanding the theoretical difference between censored, truncated and continuous data isn’t the most difficult thing in the world, but understanding the practical difference between them can have a big impact on modelling outcomes.

More word clouds: Auspol

Whilst I love text mining a classic work of western literature, this time I decided to stay in the present century with the twitter feeds of the leaders of the three major parties heading into a downunder federal election.

Turnbull word cloud

Malcolm Turnbull is the prime minister and leads the liberal party, he’s in blue. Bill Shorten is the opposition leader and head of the labor party, he’s in red. Richard di Natale is the leader of the Greens party, he’s in green because I had no choice there.

The outcomes are pretty interesting: apparently AMP was A.Big.Deal. lately. “Jobs” and “growth” were the other words playing on repeat for the two major parties.
Shorten Word Cloud

Each one has a distinct pattern, however. Turnbull is talking about AMP, plans, jobs, future, growth. Shorten is talking about labor, AMP, medicare, budget, schools and jobs. Di Natale is talking about the Greens, AMP (again), electricity, and auspol itself. Unlike the others, Di Natale was also particularly interested in farmers, warming and science.Word cloud Di Natale

The programming and associated sources are pretty much the same as for the Aeneid word cloud, except I used the excellent twitteR package you can find out about here. This tutorial on R Data mining was the basis of the project. The size of the corpi (that would be the plural of corpus, if you speak Latin) presented a problem and these resources here and here were particularly helpful.

For reference, I pulled the tweets from the leaders’ timelines on the evening of the 23/05/16. The same code gave me 83 tweets from Bill Shorten, 59 from Malcolm Turnbull and 33 from Richard Di Natale: all leaders are furious tweeters, so if anyone has any thoughts on why twitteR responded like that, I’d be grateful to hear.

The minimum frequencies for entering the word clouds were 3 per word for Shorten with a greater number of tweets picked up, but only 2 for Di Natale and Turnbull, due to the smaller number of available words.

I’ll try this again later in the campaign and see what turns up.

Data Analysis: Enough with the Questions Already

We’ve talked a lot about data analysis lately. First we asked questions. Then we asked more. Hopefully when you’re doing your own analyses you have your own questions to ask. But sooner or later, you need to stop asking questions and start answering them.

Ideally, you’d really like to write something that doesn’t leave the reader with a keyboard imprint across their forehead due to analysis-induced narcolepsy. That’s not always easy, but here are some thoughts.

Know your story.

Writing up data analysis shouldn’t be about listing means, standard deviations and some dodgy histograms. Yes, sometimes you need that stuff- but mostly what you need is a compelling narrative. What is the data saying to support your claims?

It doesn’t all need to be there. 

You worked out that tricky bit of code and did that really awesome piece of analysis that led you to ask questions and… sorry, no one cares. If it’s not a direct part of your story, it probably needs to be consigned to telling your nerd friends on twitter- at least they’ll understand what you’re talking about. But keep it out of the write up!

How is it relevant?

Data analysis is rarely the end in and of itself. How does your analysis support the rest of your project? Does it offer insight for modelling or forecasting? Does it offer insight for decision making? Make sure your reader knows why it’s worth reading.

Do you have an internal structure?

Data analysis is about translating complex numerical information into text. A clear and concise structure for your analysis makes life much easier for the reader.

If you’re staring at the keyboard wondering if checking every social media account you ever had since high school is a valid procrastination option: try starting with “three important things”. Then maybe add three more. Now you have a few things to say and can build from there.

Who are you writing for?

Academia, business, government, your culture, someone else’s, fellow geeks, students… all of these have different expectations around communication.  All of them are interested in different things. Try not to have a single approach for communicating analysis to different groups. Remember what’s important to you may not be important to your reader.

Those are just a few tips for writing up your analyses. As we’ve said before: it’s not a one-size-fits-all approach. But hopefully you won’t feel compelled to give a list of means, a correlation matrix and four dodgy histograms that fit in the space of a credit card. We can do better than that!

Data Analysis: More Questions

In our last post on data analysis, we asked a lot of questions. Data analysis isn’t a series of generic questions we can apply to every dataset we encounter, but it can be a helpful way to frame the beginning of your analysis. This post is, simply, some more questions to ask yourself if you’re having trouble getting started.

The terminology I use below (tall, dense and wide) is due to Francis Diebold. You can find his original post here and it’s well worth a read.

Remember, these generic questions aren’t a replacement for a thoughtful, strategic analysis. But maybe they will help you generate your own questions to ask your data.

Data analysis infographic

Data Analysis: Questions to Ask the First Time

Data analysis is one of the most under rated, but most important parts of data science/econometrics/statistics/whatever it is you do with data.

It’s not impressive when it’s done right because it’s like being impressed by a door handle: it is something that is both ubiquitous and obvious. But when you’re missing the doorhandles, you can’t open the door.

There are lots of guides to data analysis but fundamentally there is no one-size-fits-most approach that can be guaranteed to work for every data set. Data analysis is a series of open-ended questions to ask yourself.

If you’re new or coming to data science from a background that did not emphasise statistics or econometrics (or story telling with data in general), it can be hard to know which questions to ask.

I put together this guide to offer some insight into the kinds of questions I ask myself when examining my data for the first time. It’s not complete: work through this guide and you won’t have even started the analysis proper. This is just the first time you open your data, after all.

But by uncovering the answers to these questions, you’ll have a more efficient analysis process. You’ll also (hopefully) think of more questions to ask yourself.

Remember, this isn’t all the information you need to uncover: this is just a start! But hopefully it offers you a framework to think about your data the first time you open it. I’ll be back with some ideas for the second time you open your data later.

career timeline-2.