Data Analysis

I love analyzing microbiome-related data. I have experience working with raw read data (generally from Illumina machines), and have crafted multiple pipelines to analyze communities, assemble metagenomes, and bin metagenome-assembled genomes.

I’m familiar with the following, and regularly use these in my own work:

FastQC
Trimmomatic
BWA
SPAdes
MegaHit
Kaiju
Kraken2
MetaPhlAn2
Anvi’o
Prokka
GTDB-Tk
R packages like tidyverse (particularly ggplot2 and dplyr), phyloseq, dada2, and more.

If you have microbiome data that needs analysis or need any guidance on how you should analyze it, please let me know! Shoot me an email at the email link in the top right.