Elizabeth McDaniel's repositories
elizabethmcd.github.io
Personal website built with Quarto
uTR
Detect key Units in mosaic Tandem Repeats from representative reads from the same locus
SAOB
Metabolic networks of a syntrophic-acetate oxidizing lab-scale bioreactor community
cv
Elizabeth McDaniel CV
MicDiv
Comparisons of microbial diversity within lab-scale and full-scale EBPR systems
R1PopDynamics
Population dynamics at multiple scales of resolution of engineered bioreactor ecosystems
Abigail_EBPR_SBR
Microbial community analysis of a lab-scale SBR simulating EBPR
tfdA
Diversity and Distribution of tfdA marker underpinning microbial 2,4-D degradation
obscurePOS
Genome-resolved metagenomics of photosynthetic EBPR
arcadia-docker-builds
Glossary of Docker builds that are either maintained or used by Arcadia
AcDiv
Microdiversity and population structure of Accumulibacter using genome-resolved metagenomics
Sakinaw
Metagenomic and metatranscriptomic analysis of anoxic communities in Lake Sakinaw, BC
infant_gut_microbiome
Transposons in the infant gut microbiome analysis
metabolisHMM
Tool for constructing phylogenies and summarizing metabolic characteristics based on curated and custom profile HMMs
Lake-MAGs
Reassembly and binning of lake metagenomes from GEODES, MEHYPO, and the historical time-series metagenomics projects
ppk1_Database
Repository for assigning Accumulibacter clade designations based on ppk1 nomenclature
R-amplicons
Course website for MICRO 551 lessons on analyzing amplicon data in R
genomes-MAGs-database
Creation of a database of Genbank genomes including isolate reference genomes and MAGs, and parallelizing 1000s of genome searches for a specific marker
resources
Curated lists of resources for learning coding, bioinformatics, metagenomics, etc.
github-pages-intro
Lesson materials for creating a personal website with Github Pages
mcfaModule
Teaching module on genome-resolved metagenomic binning
algaeLakes
Searching for algae in Lake Mendota time series collab
teaching
Slide decks and scripts for teaching workshops
2019-06-27-REU-DataCarpentry
Slides and R code for teaching Intro to R for REU Data Carpentry @ UW-Madison on 2019-06-27