jhmatthes Goto Github PK

bayesian_lsp

A Bayesian hierarchical model that quantifies long-term annual land surface phenology from sparse time series of vegetation indices.

bisc-es-307-finalproject

Final project for BISC/ES 307: Ecosystem Ecology in Fall 2020

bisc201-labtemplate

Lab template for BISC 201 Rstudio Cloud labs.

bisc204_biomodeling

BISC 204: Biological Modeling is a course developed by Jackie Matthes at Wellesley College to introduce undergraduates to modeling for dynamic biological systems. The lab coding exercises were designed for sophomore/junior level undergraduates with no prior coding experience.

bisc307_ecosystemecology

This repository contains the lab materials for an upper-level (juniors/seniors) undergraduate Ecosystem Ecology with Lab course taught at Wellesley College by Jackie Matthes. This course is cross-listed in Biological Sciences and Environmental Studies. Computer lab exercises in this course focus on mastering data science concepts from the R 'tidyverse' set of packages and are designed for students with no prior coding experience. Labs are spread over two weeks, so that most labs have an "A" section completed in week 1, and a "B" section for week 2.

canreflectance_flux_plsr

cca-2021-test

Container camp repository

cmip5_esv_historicalpfts

This set of code was developed to analyze differences between the CMIP5 piControl (pre-industrial control) modeled distributions of PFTs and the Euro-American settlement vegetation dataset for the upper Midwest through the northeastern United States.

defoliation_streamflow

Using a Landsat defoliation data produce to assess the impact of moderate severity disturbance on water yield, yield:precipitation, and instantaneous streamflow at 102 stream gages in southern New England.

eab_soilflux

Code and data to fully reproduce the analysis within: Matthes, J.H., A.K. Lang, F.V. Jevon, S.J. Russell. Tree stress and mortality from emerald ash borer does not systematically alter short-term soil carbon flux in a mixed northeastern U.S. forest. Submitted to Forests, 21 Dec 2017.

ecosyseco-fa20-lab1

Lab 1 for BISC/ES 307: Ecosystem Ecology with Lab in Fall 2020 at Wellesley College.

ecosyseco-fa20-lab2

Lab 2 for BISC/ES 307: Ecosystem Ecology at Wellesley College in Fall 2020.

ecosyseco-fa20-lab3

Lab 3 for BISC/ES 307: Ecosystem Ecology taught at Wellesley College in Fall 2020 by Prof. Jackie Matthes.

ecosyseco-fa20-lab4

Code for Lab 4 of BISC/ES 307: Ecosystem Ecology taught by Prof. Jackie Matthes at Wellesley College in Fall 2020.

ecosyseco-fa20-lab5

Code for Lab 5 of BISC/ES 307: Ecosystem Ecology taught by Prof. Jackie Matthes at Wellesley College in Fall 2020.

ed2

Ecosystem Demography Model

ed2-old

ed2_erelax

ED2 version with relaxed leaf energy budget requirements

ed_paleon

Everything needed to run perform the PalEON ED runs

ed_process_output

Code for processing and plotting the output from the ED2 model

ed_runs

Various code to pre- and post-process runs for the ED2 model

evolution-populations

This shiny app runs simulations of the three population-level processes that can cause evolution: genetic drift, gene flow, and natural selection. It was developed as an instructional tool for BISC 111: Introductory Organismal Biology at Wellesley College. Instructional materials that accompany this shiny app are hosted by QUBES: [add link here once up].

foss-reproducibility-tutorial

hb-mycorrhizae-decomp

Code to analyze results from Hubbard Brook field manipulation study of mycorrhizae effects on decomposition.

lgr_gga_soilflux

Code to calculate GHG chamber fluxes measured with the LGR Ultraportable Greenhouse Gas Analyzer.

mammal-traits

This shiny app uses data from Jones, et. al., 2009, to visualize correlations among metabolic, life history, and behavioral traits. It was developed for use in BISC 111: Introductory Organismal Biology at Wellesley College. Pedagogical materials that are used in class with this app area hosted by QUBES [post link here when up].

mammaltraits.qubes

neon_nscaling

neon_oakpheno

Shiny app visualizing NEON oak phenology data.

oak-phenology-app

This code runs a shiny app for visualizing NEON oak phenology data from the Harvard Forest, Ordway-Swisher Biological Station, and San Joaquin Experimental Range NEON sites.