c2-d2 Goto Github PK

africa_export

Code for Menkir et al. 2020

cholera-mozambique

Modeling Cholera Risk for the Aftermath of Cyclone Kenneth and Cyclone Idai in Mozambique

cov-seasonality

Code for regression model from Kissler, Tedijanto et al. 2020.

cov19flightimport

Data and code for De Salazar et al. 2020

covid-19-wuhan-guangzhou-data

Raw data used for the Wuhan/Guangzhou comparison with US ICU beds

covid-ma-cases

Workflow to pull, convert, clean and categorize data from the official website with COVID-19 cases in Massachusetts

covid19-scenarios

detect_prob_corona2019

Online code for Niehus et al 2020

disty

Disty McMatrixface - compute a distance matrix from a core genome alignment file

fungalpathogens

lac_testing

microbiome_abx_probio

Code accompanying Niehus et al. 2021

nanosim-h

Simulation of Oxford Nanopore reads. A fork of NanoSim.

nm-mpox-reanalysis

Files for reanalysis of mpox observational study Wolff Sagy, Y., Zucker, R., Hammerman, A. et al. Real-world effectiveness of a single dose of mpox vaccine in males. Nat Med (2023). https://doi-org.ezp-prod1.hul.harvard.edu/10.1038/s41591-023-02229-3

npi

Modeling non-pharmaceutical interventions to curb the SARS-CoV-2 pandemic

pneumo-data

postpandemic

SARS-CoV-2 post-pandemic dynamics

pr_mort_official

Data and pipeline for Mortality in Puerto Rico after Hurricane Maria

predicting_pneumo_postpcv13

projects

metadata for ongoing or published projects

rase

The core RASE package

rase-db-ngonorrhoeae-gisp

rase-db-skeleton

rase-db-spneumoniae-sparc

rase-pipeline

RASE pipeline for inferring antibiotic resistance and susceptibility using genomic neighbor typing.

rase-supplement

Supplementary repository for Rapid inference of antibiotic resistance and susceptibility by genomic neighbor typing

samsift

SAMsift – advanced filtering and tagging of SAM/BAM alignments using Python expressions.

within-host-diversity