jamesrco Goto Github PK

3h_leu_bactprod

Suite of scripts for evaluating, calculating, and plotting rates of marine bacterial production using liquid scintillation counter data from the 3H-leucine microcentrifuge method

airspace-jekyll

A port of the Airspace theme by ThemeFisher to Jekyll.

armbrustlab.github.io

bottle-mysteries

Investigations into weird stuff that goes on during bottle incubations

dependencies-useful-scripts

Dependencies for code in other repos, and some generally useful scripts.

dielaloha

Analysis of various data from the 2015-2016 diel cycle experiments at Station ALOHA

do_instruments

Code for manipulation and analysis of data from PHORCYS and AutoBOD

drawio-github

Drawio GitHub Integration

example_untargeted_metabolomics_workflow

Setup for untargeted metabolomics

exoenzymehydrocalc

Interactively calculate rates of bacterial exoenzyme hydrolysis using fluoresence data from incubations with fluorogenic substrates

forester

forester is a collection of open source libraries of Java and Ruby software for phylogenomics and evolutionary biology research

geoscidata_io

Various scripts for data input/output and data massaging, mostly useful for earth scientists (and maybe biologists)

global-trawling-co2

A more reasonable estimate of CO2 emissions from benthic trawling

glosario

A multilingual glossary package.

ipo

A Tool for automated Optimization of XCMS Parameters - See vignette/IPO.Rmd for help

latex_thesis

LATEX code & dependencies for production of my dissertation

lipidomicsdataviz

Scripts for data processing, visualization, and statistical analysis of lipidomics data

lipidphotooxbox

Data and code for Collins et al., "The molecular products and biogeochemical significance of lipid photooxidation in West Antarctic surface waters"

lobstahs

Git repository for the R package "LOBSTAHS" (Lipid and Oxylipin Biomarker Screening Through Adduct Hierarchy Sequences)

metabolomicstools

mstoo

xcms-compatible tools for handling & manipulation of fragmentation spectra

multiplefatesofparticles

Code and data files for 2015 GBC paper on North Atlantic particle flux; also used in Laber et al. 2018 Nat. Micro. paper

nwpac_amplicon

Workup of 16S/18S data from three cruises in the NW Pacific

ocean-conservation-priorities

Repository for all the code associated with the paper "Reconciling biodiversity protection, food production, and climate change mitigation in the global ocean" from Sala et al, 2020

opedia

optics_photochem

Read in, parse, analyze marine optical and photochemical data

pacnwspills

Analysis of spill & release data from Oregon and Washington

pear

Pair-End AssembeR

seaweed

Evaluating the potential for seaweed aquaculture to sequester carbon and mitigate climate change

smartthings

Samsung SmartThings SmartApps and Device Handlers