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Rachel Ehrlich's Projects

architecture-patterns-cosmic-python icon architecture-patterns-cosmic-python

A Book about Pythonic Application Architecture Patterns for Managing Complexity. Cosmos is the Opposite of Chaos you see. O'R. wouldn't actually let us call it "Cosmic Python" tho.

fsgm icon fsgm

Finite supragenome model from Justin and Robert

mutation_rate_drake icon mutation_rate_drake

Calculate the mutation rate using the method from https://www.pnas.org/content/pnas/88/16/7160.full.pdf

pwt icon pwt

Run pilon until it converges

ray_assembly icon ray_assembly

Assemble a genome from Illumina data via the scripts from Josh Mell

roary_analysis icon roary_analysis

Scripts for analyzing the output of Roary which can be found at: https://github.com/sanger-pathogens/Roary

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