[Update 2] Evolutionary & epidemiological analysis of 128 genomes – SARS-CoV-2 coronavirus / nCoV-2019 Genomic Epidemiology – Virological

Phylodynamic analyses based on 128 sequences
Jérémie Sciré1,2, Timothy G. Vaughan1,2, Sarah A. Nadeau1,2, and Tanja Stadler1,2,*
1Department of Biosystems Science and Engineering, ETH Zürich, Basel, Switzerland
2Swiss …

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The language of choice - Propositional logic was discovered by Stoics around 300 B.C., only to be abandoned in later antiquity and rebuilt in the 19th century by George Boole’s successors. One of them, Charles Peirce, saw its significance for what we now call logic circuits, yet that discovery too was forgotten until the 1930s. In the ’50s John McCarthy invented conditional expressions, casting the logic into the form we’ll study here; then in 1986 Randal Bryant repeated one of McCarthy’s constructions with a crucial tweak that made his report “for many years the most cited paper in all of computer science, because it revolutionized the data structures used to represent Boolean functions” (Knuth).1 Let’s explore and code up some of this heritage of millennia, and bring it to bear on a suitable challenge: playing tic-tac-toe.
Then we’ll tackle a task that’s a little more practical: verifying a carry-lookahead adder circuit. Supposedly logic gets used all the time for all kinds of serious work, but for such you’ll have to consult the serious authors; what I can say myself, from working out the code to follow, is that the subject offers a fun playground plus the most primitive form of the pun between meaning and mechanism.

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[Update 2] Evolutionary & epidemiological analysis of 128 genomes – SARS-CoV-2 coronavirus / nCoV-2019 Genomic Epidemiology – Virological