Susie Theroux's starred repositories
biovcnet.github.io
Github Pages template for academic personal websites, forked from mmistakes/minimal-mistakes
microDecon
An R package for removing contamination from metabarcoding (e.g., microbiome) datasets post-sequencing
WorkingDogs
Home repo for the Working Dogs pack of bioinformatics tools
BOLDigger-commandline
BOLDigger as a commandline tool
omics-data-management
Previous guide to omics data management, including NOAA Omics Data Management Plan.
apps_for_fieldwork
Compendium of smartphone applications for field biology
miqScoreShotgunPublic
Repo for public-facing shotgun MIQ score
gruinard_decon
An eDNA metabarcoding decontamination pipeline
MGPrimerEval
This is a snakemake pipeline that determines primer mismatches to SSU rRNA in metagenomic data.
tourmaline
Amplicon sequence processing workflow using QIIME 2 and Snakemake
doc-publishing-dna-derived-data
This guide shows how to publish DNA-derived spatiotemporal biodiversity data and make it discoverable through national and global biodiversity data discovery platforms. Based on experiences from Australia, Norway, Sweden, UNITE, and GBIF.
MBON-Protocols
In lab and out of lab protocols for MBON eDNA collection and processing
db-build-microeuks
Documentation to build databases for 18S tag-sequencing or metaT/G work
GEISHA_phytoplankton
code for GEISHA functional group classification R package