Pinned Repositories
BISC-ES-307-FinalProject
Final project for BISC/ES 307: Ecosystem Ecology in Fall 2020
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
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.
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].
LGR_GGA_soilflux
Code to calculate GHG chamber fluxes measured with the LGR Ultraportable Greenhouse Gas Analyzer.
jhmatthes's Repositories
jhmatthes/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.
jhmatthes/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.
jhmatthes/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.
jhmatthes/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.
jhmatthes/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].
jhmatthes/LGR_GGA_soilflux
Code to calculate GHG chamber fluxes measured with the LGR Ultraportable Greenhouse Gas Analyzer.
jhmatthes/BISC-ES-307-FinalProject
Final project for BISC/ES 307: Ecosystem Ecology in Fall 2020
jhmatthes/canreflectance_flux_plsr
jhmatthes/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.
jhmatthes/EcosysEco-FA20-Lab1
Lab 1 for BISC/ES 307: Ecosystem Ecology with Lab in Fall 2020 at Wellesley College.
jhmatthes/EcosysEco-FA20-Lab2
Lab 2 for BISC/ES 307: Ecosystem Ecology at Wellesley College in Fall 2020.
jhmatthes/EcosysEco-FA20-Lab3
Lab 3 for BISC/ES 307: Ecosystem Ecology taught at Wellesley College in Fall 2020 by Prof. Jackie Matthes.
jhmatthes/EcosysEco-FA20-Lab4
Code for Lab 4 of BISC/ES 307: Ecosystem Ecology taught by Prof. Jackie Matthes at Wellesley College in Fall 2020.
jhmatthes/EcosysEco-FA20-Lab5
Code for Lab 5 of BISC/ES 307: Ecosystem Ecology taught by Prof. Jackie Matthes at Wellesley College in Fall 2020.
jhmatthes/ED2_Erelax
ED2 version with relaxed leaf energy budget requirements
jhmatthes/ED_process_output
Code for processing and plotting the output from the ED2 model
jhmatthes/ED_runs
Various code to pre- and post-process runs for the ED2 model
jhmatthes/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].
jhmatthes/NEON_NScaling
jhmatthes/NEON_oakpheno
Shiny app visualizing NEON oak phenology data.
jhmatthes/BISC201-LabTemplate
Lab template for BISC 201 Rstudio Cloud labs.
jhmatthes/cca-2021-test
Container camp repository
jhmatthes/Bayesian_LSP
A Bayesian hierarchical model that quantifies long-term annual land surface phenology from sparse time series of vegetation indices.
jhmatthes/ED2
Ecosystem Demography Model
jhmatthes/FOSS-reproducibility-tutorial
jhmatthes/HB-mycorrhizae-decomp
Code to analyze results from Hubbard Brook field manipulation study of mycorrhizae effects on decomposition.
jhmatthes/mammaltraits.qubes
jhmatthes/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.
jhmatthes/paleon_code
Bits of PalEON code
jhmatthes/shinyapp.qubes
This is a simple example used to demonstrate what is needed to host your R Shiny app on QUBESHub.