Matt Olm

drep. Rapid comparison and dereplication of genomes

inStrain. Bioinformatics program inStrain

covid19_population_genomics. Analysis of the population diversity of SARS-CoV-2 within and between individual patients

tRep. Quickly get the taxonomy of a genome

pipeCoverage. Quickly calculate coverage of sequences in a .sam file while retaining breadth information

bacterialEvolutionMetrics. Scripts in support of publication

drep_instrain_tutorial. Tutorial for dRep and inStrain. Made for EBAME7

MIGSeq_code. Code supporting the publication "Metagenomic Immunoglobulin Sequencing (MIG-Seq) Exposes Patterns of IgA Antibody Binding in the Healthy Human Gut Microbiome"

VICA. Identifying VIral and Circular content in metAgenomes

ZenodoREADME. README for Zenodo archive associated with publication Ultra-deep Sequencing of Hadza Hunter-Gatherers Recovers Vanishing Gut Microbes

nf-genomeresolvedmetagenomics. A nextflow pipeline to perform genome resolved metagenomics

InfantEukaryotes. Notebooks supporting the publication "Strain-level overlap between infant and hospital fungal microbiomes revealed through de novo assembly of eukaryotic genomes from metagenomes"

glrestore. Easily restore objects from AWS glacier from the command line using python