Software
POUTINE
A homoplasy-counting-based method for genome-wide association studies (GWAS). Get the code and documentation. Reference: Chen P & Shapiro BJ (2021) bioRxiv. |
BacGWASim
A simulator of bacterial genomes and phenotypes to benchmark genome-wide association studies Get the code and documentation. Reference: Saber MM & Shapiro BJ (2020) Microbial Genomics. |
symsimSymsim is a simple simulation of sympatric speciation in recombining microbial populations.
Get the code and documentation. Reference: Friedman J, Alm EJ, Shapiro BJ. (2013) PLOS ONE |
STARRInIGHTS
Strain-based Tree Analysis and Recombinant Region Inference In Genomes from High-Throughput Sequencing projects Get the code and documentation. Reference: Shapiro BJ et al. (2012) Science. |
Miscellany
scikuA collection of illustrated science poetry.
www.sciku.org |