Lee Katz

I am the senior bioinformatician in the Enteric Diseases Laboratory Branch at CDC. In my free time, I try to be a good husband and parent, and in my imaginary free time, I podcast with my co-hosts on the Micro Binfie podcast.

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Recent posts

NFT of BRCA1

1 minute read

I’ve been sort of amazed ever since I heard about NFTs from Planet Money and now the New York Times.  Basically you associate a place on the blockchain with ...

Downloading the breadth of SARS-CoV-2

1 minute read

I was trying to figure out how to download the breadth of all of SARS-CoV-2 genomes and so I started out with the two major repositories: NCBI and GISAID.

Minimizer perl module

1 minute read

I looked all over cpan but did not find a module to make Minimizers.  Therefore I went ahead and made it in Bio::Minimizer.

Cluster detection using Mash

2 minute read

I have been racking my brain on what the command line version of a rapid cluster detection should be.  As in, how can I rapidly figure out if two random geno...

Fixing the R package manager

less than 1 minute read

R’s package manager is broken.  I present to you my solution for it. $HOME is your home directory. 1) mkdir -pv $HOME/R/tmp 2) Edit $HOME/.Renviron and ad...