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2015-ceskykrumlov-phylodynamics

Český Krumlov 2015 - Phylodynamics

3cl_protease_dms

Deep mutational scanning of the SARS-CoV-2 3CL protease

a-phylodynamic-analysis-of-sars-cov-2-outbreak-in-a-densely-populated-city-portsmouth-uk-

A repository with reports on phylodynamic analyses realized on COVID-19 sequences collected at the University of Portsmouth/Portsmouth Hospital

accourse2019

Repository for course materials for the antigenic cartography and antibody landscapes course 2019

adapref

R package to do adaptive preferential sampling in phylodynamics

ai_engineering_max

aim

Aim — a super-easy way to record, search and compare 1000s of ML training runs

aisource

Repository for the paper "Machine learning to predict the source of campylobacteriosis using whole genome data"

amr_prediction

A machine learning framework to predict antibiotic resistance traits and yet unknown genes underlying resistance to specific antibiotics in bacterial strains.

beagle-lib

general purpose library for evaluating the likelihood of sequence evolution on trees

beast-mcmc

Bayesian Evolutionary Analysis Sampling Trees

beast2

Bayesian Evolutionary Analysis by Sampling Trees

catboost

A fast, scalable, high performance Gradient Boosting on Decision Trees library, used for ranking, classification, regression and other machine learning tasks for Python, R, Java, C++. Supports computation on CPU and GPU.

causallib

A Python package for modular causal inference analysis and model evaluations

cchsflow

Variable transformation and harmonization for the Canadian Community Health Survey

ceirs-training-taiwan-2019

Materials for CEIRS training Taiwan 2019

churn_classification_comparison

clonalframeml

ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes

codedoc

codons

Translation of nucleotides in the mRNA into a sequence of amino acids using the genetic code

collaboratory-epiparameter-community

contemporary_syphilis_lineages_2021

2021 Analysis of Global Treponema pallidum subspecies pallidum genomic diversity, distribution and lineage dynamics.

coursera-capstone-mlproject

coursera_capstone

Capstone Project - Applied Data Science - Anand

cov2clusters

Stable clustering of SARS-CoV-2 sequences from phylogenetic trees

covid-blog-posts

A series of blog posts about modeling the COVID-19 epidemic using the SIR model

covid-climate

Publicly available data and codes in "Role of meteorological factors in the transmission of SARS-CoV-2 in the United States"

covid19-forecast-hub

Projections of COVID-19, in standardized format

dashboard-workshop-dash

Workshop material for the Vancouver DataJam

datasharing

The Leek group guide to data sharing