https://github.com/alberdilab/behavioral_hologenomics
Behavioral hologenomics study
https://github.com/alberdilab/behavioral_hologenomics
project
Last synced: 5 months ago
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Behavioral hologenomics study
- Host: GitHub
- URL: https://github.com/alberdilab/behavioral_hologenomics
- Owner: alberdilab
- Created: 2024-01-22T11:08:00.000Z (over 2 years ago)
- Default Branch: main
- Last Pushed: 2024-04-01T07:22:21.000Z (about 2 years ago)
- Last Synced: 2025-09-09T02:55:27.807Z (10 months ago)
- Topics: project
- Language: Shell
- Size: 109 MB
- Stars: 1
- Watchers: 0
- Forks: 1
- Open Issues: 0
-
Metadata Files:
- Readme: README.md
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README
# Behavioral Hologenomics
I'm a PhD candidate at the University of Copenhagen, Center for Evolutionary Hologenomics. My PhD is atm entitled "The bugs and behaviours of animals – Hologenomics as a tool for studying the role of the gut microbiota in mammalian behaviour". The main aim of PhD thesis is to investigate how/if the gut microbiome influences animal behaviour using a hologenomic approach. I have two research studies in my PhD to assess this and they are called:
1. Fox study (alias: behavioural fox study, fox project)
2. Mice study (alias: BeHo study, BeHo project, behavioural hologenomics mice study)
Here I share the computational work (codes and results) of the BeHo project. The text below origins from this document:
https://docs.google.com/document/d/1Ra6K9tJBcnQmh23X5Pv3lZoZJmxm84B3S1uOH_diuWY/edit?usp=sharing
## Index
## Analysis procedures
The raw code used for data analysis is in the **Rmd** files stored in the root directory of this repository, while the bookdown-rendered webbook is available at:
[alberdilab.github.io/lizard_sample_types](https://alberdilab.github.io/lizard_sample_types)
While the webbook provides a user-friendly overview of the procedures, analyses can be directly reproduced using the Rmd documents. Note that the code chunks that require heavy computation have been tuned off using 'eval=FALSE'. To re-render the webbook, you can use the following code:
```r
library(bookdown)
library(htmlwidgets)
library(webshot)
render_book(input = ".", output_format = "bookdown::gitbook", output_dir = "docs")
```