I'm not real and I deny I won't heal unless I cry.let it gomore quotes

# satire: exciting

EMBO Practical Course: Bioinformatics and Genome Analysis, 5–17 June 2017.

# Dummer — Like Nothing Else

The Hummer font is a slightly modified Antique Olive Nord. The Like Nothing Else tag line is Trade Gothic. Both have character widths increased to 110-120% and individually adjusted kerning. Get the Illustrator CS5 file for both logos.

Hummer logo. (EPS, PNG)
Dummer logo. (EPS, PNG)
Download high-resolution images.

This project might give you the impression that I don't like Hummers. You'd be right.

It could be worse. But not by much. (zoom)
It could be worse. But not by much. (zoom)
It could be worse. But not by much. (zoom)

## update

The Maurauder. Over 25,000 lb — five times what an H3 weighs. Enough said.

There is always someone with a bigger one. (Manufacturer's page.)

## Dummer - Like Nothing Else

Hummers are a cultural equivalent of a toxic warning label and have the same effect on me as bug spray on mosquitoes.

I am not the first one to satirize this automotive aberration, so there's some hope.

Dummer. Like Nothing Else. (New York Times — Laugh Lines)

GM's advertisement images require no modification for the satire, which makes it all that much better.

Dumb and Dumber. (New York Times — Laugh Lines)

I could have just as well used the Lincoln Navigator or Cadillac Escalade, but they don't embody the superlative like the Hummer.

The Hummer brand proved itself to be aesthetically, rationally and economically unsustainable and collapsed after a failed attempt to sell it to China. There continues to be a robust market for used Hummers. Let the farce continue.

## I'm hated

It delights me that this project produced my first hate mail.

I want to meet Doug and give him a hug for adding another dimension to this project.

## I'm loved

The images got picked up by the New York Times laughlines blog, which drew a couple of fan mails.

But neither made me feel as good as Doug's email.

## Dummer Images

Dummer. Like nothing else. (zoom)
Dummer. Like nothing else. (zoom)
Dummer. Like nothing else. (zoom)
Dummer. Like nothing else. (zoom)
Dummer. Like nothing else. (zoom)
Dummer. Like nothing else. (zoom)
Dummer. Like nothing else. (zoom)
Dummer. Like nothing else. (zoom)
Dummer. Like nothing else. (zoom)
VIEW ALL

# Classification and regression trees

Fri 28-07-2017
Decision trees are a powerful but simple prediction method.

Decision trees classify data by splitting it along the predictor axes into partitions with homogeneous values of the dependent variable. Unlike logistic or linear regression, CART does not develop a prediction equation. Instead, data are predicted by a series of binary decisions based on the boundaries of the splits. Decision trees are very effective and the resulting rules are readily interpreted.

Trees can be built using different metrics that measure how well the splits divide up the data classes: Gini index, entropy or misclassification error.

Nature Methods Points of Significance column: Classification and decision trees. (read)

When the predictor variable is quantitative and not categorical, regression trees are used. Here, the data are still split but now the predictor variable is estimated by the average within the split boundaries. Tree growth can be controlled using the complexity parameter, a measure of the relative improvement of each new split.

Individual trees can be very sensitive to minor changes in the data and even better prediction can be achieved by exploiting this variability. Using ensemble methods, we can grow multiple trees from the same data.

Krzywinski, M. & Altman, N. (2017) Points of Significance: Classification and regression trees. Nature Methods 14:757–758.

### Background reading

Lever, J., Krzywinski, M. & Altman, N. (2016) Points of Significance: Logistic regression. Nature Methods 13:541-542.

Altman, N. & Krzywinski, M. (2015) Points of Significance: Multiple Linear Regression Nature Methods 12:1103-1104.

Lever, J., Krzywinski, M. & Altman, N. (2016) Points of Significance: Classifier evaluation. Nature Methods 13:603-604.

Lever, J., Krzywinski, M. & Altman, N. (2016) Points of Significance: Model Selection and Overfitting. Nature Methods 13:703-704.

Lever, J., Krzywinski, M. & Altman, N. (2016) Points of Significance: Regularization. Nature Methods 13:803-804.

# Personal Oncogenomics Program 5 Year Anniversary Art

Wed 26-07-2017

The artwork was created in collaboration with my colleagues at the Genome Sciences Center to celebrate the 5 year anniversary of the Personalized Oncogenomics Program (POG).

5 Years of Personalized Oncogenomics Program at Canada's Michael Smith Genome Sciences Centre. The poster shows 545 cancer cases. (left) Cases ordered chronologically by case number. (right) Cases grouped by diagnosis (tissue type) and then by similarity within group.

The Personal Oncogenomics Program (POG) is a collaborative research study including many BC Cancer Agency oncologists, pathologists and other clinicians along with Canada's Michael Smith Genome Sciences Centre with support from BC Cancer Foundation.

The aim of the program is to sequence, analyze and compare the genome of each patient's cancer—the entire DNA and RNA inside tumor cells— in order to understand what is enabling it to identify less toxic and more effective treatment options.

# Principal component analysis

Thu 06-07-2017
PCA helps you interpret your data, but it will not always find the important patterns.

Principal component analysis (PCA) simplifies the complexity in high-dimensional data by reducing its number of dimensions.

Nature Methods Points of Significance column: Principal component analysis. (read)

To retain trend and patterns in the reduced representation, PCA finds linear combinations of canonical dimensions that maximize the variance of the projection of the data.

PCA is helpful in visualizing high-dimensional data and scatter plots based on 2-dimensional PCA can reveal clusters.

Altman, N. & Krzywinski, M. (2017) Points of Significance: Principal component analysis. Nature Methods 14:641–642.

### Background reading

Altman, N. & Krzywinski, M. (2017) Points of Significance: Clustering. Nature Methods 14:545–546.

# $k$ index: a weightlighting and Crossfit performance measure

Wed 07-06-2017

Similar to the $h$ index in publishing, the $k$ index is a measure of fitness performance.

To achieve a $k$ index for a movement you must perform $k$ unbroken reps at $k$% 1RM.

The expected value for the $k$ index is probably somewhere in the range of $k = 26$ to $k=35$, with higher values progressively more difficult to achieve.

In my $k$ index introduction article I provide detailed explanation, rep scheme table and WOD example.