Here's my poster for #ABACBS2023!
We compared different #eDNA taxonomic classifiers across different simulated datasets of 12S and 16S metabarcoding data.
MMSeqs2 generally 'wins' closely followed by BLAST.
With exclusion databases it becomes apparent that standard Kraken2 produces many, many false positives. With some families like snappers, all classifiers can't assign more than ~30% of sequences.
(not shown is COI, where MMSeqs2 and Mothur are working best)
For those in Brisbane soon for #ABACBS2023 - we have a fabulous Clinical Informatics Symposium planned!
If you work in a clinically related setting, or if you ever just wondered how bioinformatics research makes it into real clinical use – this session is for you.
Hear from speakers who work every day in evaluating, validating and deploying new methods into clinical settings and chat with them directly in our meet and greet!
Registration through EventBrite:
Interesting competition in the leadup to #abacbs2023
Analysing high-resolution spatial transcriptomics data and submitting your results - they say it should take between 3 and 6 hours to do all tasks. I'll have a look this weekend :)
Vijini Mallawaarachchi
Philipp Bayer
Simon Sadedin