Code

I taught myself to code during my PhD: I feel most at home in R but also speak python and Unix.

My love for coding has lead me to pursue extracurricular pedagogical activities in computer programming and I am a certified Software Carpentry instructor.

Below you can find descriptions of my major coding projects.

genomalicious

A smorgasbord of R functions for population genomic analyses.

Source code available on my GitHub.

This R package was birthed from my personal need to create simple, basic tools for importing, manipulating, and reformatting population genomic data in R.

This package is a continually evolving community of programmes, but my primary ethos for its functionality are to provide:
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1. Easy import of VCF files into R as (long) data tables, which forms the main data object for many other functions.
   
   
2. Easy-to-use functions for converting VCF-derived SNP data into formats commonly used population genetics/genomics programmes (inside and outside R).
   
   
3. Easy-to-use functions for importing outputs from common population genetic/genomics programmes that operate outside R.
   
   
4. Tools for attractive, aesthetically pleasing figures for data exploration and results presentation.
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5. Tools for analysing pooled and individually sequenced RAD-seq data.
   

CITE: Thia JA, Riginos C (2019) genomalicious: serving up a smorgasbord of R functions for population genomic analyses. bioRxiv. doi.org/10.1101/667337.

Links to other profiles