elizabethmcd
Scientist @ Arcadia Science working on computational discovery.
Arcadia ScienceBerkeley, CA
Pinned Repositories
2019-05-19-glbio-docker
2019-06-27-REU-DataCarpentry
Slides and R code for teaching Intro to R for REU Data Carpentry @ UW-Madison on 2019-06-27
BLAST-DAGMan
Directed Acyclic Workflow Manager for running BLAST all-v-all on HTCondor
EBPR-MAGs
Extracting, refining, and utilizing MAGs from EBPR reactor metagenomic time-series
elizabethmcd.github.io
Personal website built with Quarto
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
MEHG
Exploring the phylogenetic and metabolic diversity of microbial mercury methylation
metabolisHMM
Tool for constructing phylogenies and summarizing metabolic characteristics based on curated and custom profile HMMs
ppk1_Database
Repository for assigning Accumulibacter clade designations based on ppk1 nomenclature
R3R4
Metagenomic assembly and metatranscriptomic analysis of co-occuring Accumulibacter populations
elizabethmcd's Repositories
elizabethmcd/metabolisHMM
Tool for constructing phylogenies and summarizing metabolic characteristics based on curated and custom profile HMMs
elizabethmcd/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
elizabethmcd/MEHG
Exploring the phylogenetic and metabolic diversity of microbial mercury methylation
elizabethmcd/elizabethmcd.github.io
Personal website built with Quarto
elizabethmcd/R3R4
Metagenomic assembly and metatranscriptomic analysis of co-occuring Accumulibacter populations
elizabethmcd/EBPR-MAGs
Extracting, refining, and utilizing MAGs from EBPR reactor metagenomic time-series
elizabethmcd/ppk1_Database
Repository for assigning Accumulibacter clade designations based on ppk1 nomenclature
elizabethmcd/2019-06-27-REU-DataCarpentry
Slides and R code for teaching Intro to R for REU Data Carpentry @ UW-Madison on 2019-06-27
elizabethmcd/Abigail_EBPR_SBR
Microbial community analysis of a lab-scale SBR simulating EBPR
elizabethmcd/AcDiv
Microdiversity and population structure of Accumulibacter using genome-resolved metagenomics
elizabethmcd/algaeLakes
Searching for algae in Lake Mendota time series collab
elizabethmcd/arcadia-docker-builds
Glossary of Docker builds that are either maintained or used by Arcadia
elizabethmcd/cv
Elizabeth McDaniel CV
elizabethmcd/genomeassembler
elizabethmcd/github-pages-intro
Lesson materials for creating a personal website with Github Pages
elizabethmcd/infant_gut_microbiome
Transposons in the infant gut microbiome analysis
elizabethmcd/Lake-MAGs
Reassembly and binning of lake metagenomes from GEODES, MEHYPO, and the historical time-series metagenomics projects
elizabethmcd/mcfaModule
Teaching module on genome-resolved metagenomic binning
elizabethmcd/metaG-bin-analysis
elizabethmcd/MicDiv
Comparisons of microbial diversity within lab-scale and full-scale EBPR systems
elizabethmcd/obscurePOS
Genome-resolved metagenomics of photosynthetic EBPR
elizabethmcd/R-amplicons
Course website for MICRO 551 lessons on analyzing amplicon data in R
elizabethmcd/R1PopDynamics
Population dynamics at multiple scales of resolution of engineered bioreactor ecosystems
elizabethmcd/resources
Curated lists of resources for learning coding, bioinformatics, metagenomics, etc.
elizabethmcd/Sakinaw
Metagenomic and metatranscriptomic analysis of anoxic communities in Lake Sakinaw, BC
elizabethmcd/SAOB
Metabolic networks of a syntrophic-acetate oxidizing lab-scale bioreactor community
elizabethmcd/TbasCO
elizabethmcd/teaching
Slide decks and scripts for teaching workshops
elizabethmcd/tfdA
Diversity and Distribution of tfdA marker underpinning microbial 2,4-D degradation
elizabethmcd/uTR
Detect key Units in mosaic Tandem Repeats from representative reads from the same locus