_9999_TODO.Rmd

# add to compbio4all

## function to add 
unrootedNJtree  

## data to add 

1. protein sequences form rabies etc
1. virusaln

# from canvas

1. add existing wikipedia entries i've already curage

# misc

1. write study question
1. where are original questions from original book?
1. 
 

# References to add / explore

Courses

https://4va.github.io/biodatasci/r-ggtree.html

Introduction to bioinformatics
https://uclouvain-cbio.github.io/WSBIM1207/

Bioinformatics
https://uclouvain-cbio.github.io/WSBIM1322/

Omics data analysis
https://uclouvain-cbio.github.io/WSBIM2122/

UniprotR: Retrieving and visualizing protein sequence and functional information from Universal Protein Resource (UniProt knowledgebase)
Journal of Proteomics
https://www.sciencedirect.com/science/article/pii/S1874391919303859?casa_token=mOl5FCsRf5cAAAAA:zxlkQyVIt2MobNplBpH2_oUxvTedT724oLnCYGDmvdn1YPV9har4HK_wCu5ixG9_iCqlVSi-Zw

The Bio3D packages for structural bioinformatics
https://onlinelibrary.wiley.com/doi/epdf/10.1002/pro.3923
http://thegrantlab.org/bio3d/index.html

KeBABS - An R Package for Kernel-Based Analysis of Biological Sequences
http://www.bioinf.jku.at/software/kebabs/

A workflow with R: Phylogenetic analyses and visualizations using mitochondrial cytochrome b gene sequences
https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0243927

Rchemcpp: An R package for computing the similarity of molecules
http://www.bioinf.jku.at/software/Rchemcpp/index.html



Orchestrating high-throughput genomic analysis with Bioconductor
https://www.nature.com/articles/nmeth.3252

# datacamp-light.js. 

https://community.rstudio.com/t/bookdown-contest-submission-introduction-to-econometrics-with-r/15372

https://www.econometrics-with-r.org/2-3-exercises.html

https://cdn.datacamp.com/dcl-react-prod/index.html#tutorial-exercise-element

# Use Moder stats - Modern bio style?

https://www-huber.embl.de/users/msmith/msmbstyle/questions-and-solutions.html

# Exercises with soluions notes

https://community.rstudio.com/t/bookdown-reveal-solution-to-exercise/16496/5

## unilur

http://koncina.github.io/unilur/reference/index.html

# custom blocks

https://github.com/yihui/rmarkdown-cookbook/issues/50

## excellent examples

https://cehs-research.github.io/eBook_install/index.html#blocked-notes