Rubrics for assignments

Systematic review paper/workflow review /50

Title: informative, clear, useful. /2
Abstract: summarizes enture paper succinctly including implications /5
Introduction: Clear, appropriate length, introduces topic, states purpose and objective /10
Methods: Replicable, transparent /5
Results: Written description can stand alone /3
Discussion: Clear, does not repeat results, highlights novelty, relates to previous research, states implications /10
Lit cited & lit reviewed: appropriate and extensive (at least 40 citations and sufficient body reviewed)  /5
Figures & tables: sufficient, clear, stand alone capacity, summarizes salient findings /10


Open-science products /25

datasets on figshare
presentation on slideshare
figures/infographics on figshare
interactive figure on
video on camtasia

Information content sufficient to communicate main finding and include salient evidence/main findings /5
Visually captivating and attractive to appeal to a wide audience /5
Text associated with product well written and appropriately conveys details needed to understand product (i.e. meta-data, tags, text on slides, text on infographic, etc). /5
Science behind product sound, evidence-based, not too simplistic, and can be assessed by a scientific non-expert to your field /5

Related evidence also referenced (other workflows, reviews, statistical tests, products etc) very important to show how your work connects to other /5


Instructions for submitting paper

Here are the options associated with submitting the paper next week by 629pm (Oct 23rd).

1. Submit to peerj as a pre-print. The class & I will review and post feedback.

2. Email to me directly as word doc and pdf.

3. Submit to google folder for class to download (folder I shared with you at beginning of the course).

If you would prefer for only me to see, use option 2. If you want more feedback, use option 1.

Remember: use appendices in the paper and include PRISMA report for systematic reviews.

Presentations: x-people past & future

(1) Thank you for the presentations last week (past). Super useful to get a grasp of the scope of the research and analytics for your fields.

(2) Reminder (future): beginning next week, you guys are up to bat for 3 weeks of advanced statistical presentations. We have the first two weeks covered by students. The last week, I can do as best I can.

Oct 23rd: GLM/GLMMS

Nov 6th: CART & Ordination

Nov 13th: SEMs and Advanced regressions.



Systematic review guidelines

hi team,  just a quick update.

1. I deleted all commenting on blog. Spam is so annoying. Those bots!
2. Remember, you have to publish the data you collect for your review on figshare as part of your grade. It must include meta-data etc.
3. I have had a request for guidelines.  If you are not afraid of getting scooped, I strongly recommend you publish paper on peerj as a pre-print.

Copy for formatting style of this paper.

Summary – you must publish data, include a PRISMA report, have at least two figures, and write a paper like the peerj example.

We can discuss this all next week, Oct9th, in class. However, in the interim keep cranking on those papers, get the two-three figures ready, the PRISMA report, and maybe the methods & results too.

The more you have prepped for next week, the more I can help.

Paper Idea (Sam)

Hey everyone,

I came up with an idea for my stats paper that combines both the work-flow concept and a review of statistical analyses. Because my thesis involves a lot of spatial statistics, I though it would be great for me to explore the different types of analyses used with spatial data.

I will be writing a review paper/workflow paper on how to work with spatial data and the statistics that can be used to analyze this data

The questions that I will ask are:

  • What kind of data do I have?
  • What do I have to do with my data before I start analyses?
  • What spatial statistics methods can I use with my data to answer my research questions?

Let me know what you guys think!



Research Topic- Jacob=)

Hey Guys! The overall objective of my research project is to create a lab-on-a-chip device platform for drug/chemical assays using fruit fly embryos. The first part of my project is to study Drosophila oviposition (specifically, its response to physical properties such as textures). From this, I plan to micro-fabricate a patterned device to collect embryos and to pass chemicals through them for developmental imaging. So, for this course, I think I’ll be looking at how statistics is used in presenting oviposition data and errors.

Research Topic-Amy

Hi all,

For my research I am focusing on how plant facilitation effects associated animal species.  For my systematic review I will look at the statistical tests used in studies that examine plant (specifically shrubs) facilitation that also incorporate another trophic level in some way.  My search terms are facilitat* AND shrub.

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