PH.D STUDENT OPENING IN COMMUNITY ECOLOGY IN THE ERNEST LAB {.wp-image-1708 .alignleft loading=“lazy” decoding=“async” attachment-id=“1708” permalink=“https://jabberwocky.weecology.org/2016/09/19/phd-student-opening-community-ecology-ernest-lab/20916401782_019d3c14eb_z/” orig-file=“https://i0.wp.com/jabberwocky.weecology.org/wp-content/uploads/2016/09/20916401782_019d3c14eb_z.jpg?fit=640%2C480&ssl=1” orig-size=“640,480”
I’m currently writing two manuscripts that each have a substantial data modelling component. Some of our previous papers have included computer code, but it was straightforward enough to have the code as a supplementary file or in a GitHub repo and leave it at that. Now with more substantial computation in the manuscript, I was wondering how best to describe it. How much detail is required?
At the beginning of June I participated in the Trees Count Data Jam, experimenting with the results of the census of New York City street trees begun by the Parks Department in 2015. I had seen a beta version of the map tool created by the Parks Department’s data team that included images of the trees pulled from the Google Street View database. Those images reminded me of others I had seen in the @everylotnyc twitter feed.
The next installment from the Portal Blog by my student Joan Meiners (@beecycles) on how we shook things up at the Portal Project so we could study regime shifts.
Statistical hypothesis testing , commonly referred to as “statistics”, is a topic of consternation among cell biologists. This is a short practical guide I put together for my lab. Hopefully it will be useful to others. Note that statistical hypothesis testing is a huge topic and one post cannot hope to cover everything that you need to know.
From how we do science to publishing practices to the sociology of science, there isn’t an aspect of the scientific endeavor that isn’t in flux right now.
The first, throat clearing post to kick off what (we hope) will be a revitalization of the Portal Project Blog
[Update: A little bird pointed out I didn’t have a link to the actual Portal blog. That has been remedied along with a link to the Portal Project website for those who’d like more info on the project] A couple weeks ago, I posted about the new data paper from my long-term field site, the Portal Project.
This post follows on from “Getting Started“. In the lab we use IgorPRO for pretty much everything. We have many analysis routines that run in Igor, we have scripts for processing microscope metadata etc, and we use it for generating all figures for our papers. Even so, people in the lab engage with it to varying extents. The main battle is that the use of Excel is pretty ubiquitous.
Something that has driven me nuts for a while is the bug in FIJI/ImageJ when making montages of image stacks. This post is about a solution to this problem. What’s a montage? You have a stack of images and you want to array them in m rows by n columns. This is useful for showing a gallery of each frame in a movie or to separate the channels in a multichannel image.