Even `bowtie2`’s `–very-sensitive-local` option can be a little grumpy. Here’s how I make `bowtie2` a little more relaxed for alignment of more dissimilar sequences, particularly for my work on metagenomes.
It’s time for a PhD status report Christmas special. It’s a cliff-hanger episode, with a sad ending.
Another long overdue insight to the things I am supposed to be doing so I can call myself a doctor someday.
The adventure continues, here’s what I’m working on lately.
Yesterday, I gave a talk at the Aberystwyth Bioinformatics Workshop on the metahaplome: a graph inspired structure for encoding the variation of single nucleotide polymorphisms (SNPs) observed across aligned sequenced reads.