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autograding_sakaind

Repository for scripts that assist with grading files from Sakai for Notre Dame TAs

bios60132_finalproject

Repository for the BIOS60132 final project

bios60573_popmodeling_2020

Repository for notes and code for population modeling dynamics and mechanisms

bip_2022

Repository for BIP 2022 scripts and data files.

comparativegenomicspipeline_daphnia

Repository for code to perform comparative genomic analyses for Daphnia

csci301_talabs_wwu

Files for CS 301 labs at WWU, Fall 2016.

daphniatranscriptomics_pfrenderlab

Repository for code to perform transcriptomic analyses for Daphnia

databaseproject_uesl_fall

Repository for the development of a MVC GUI for an Entity Framework database.

databaseproject_uesl_winter

Database for CWU UESL program; includes an ASP.NET web application with MVC architecture

dgeanalysis_shinyapps

Shiny application framework for various expression analyses of count data.

ds_postfix

An example denotational semantics for the PostFix language.

eclosiondata_formatting

Scripts for formatting eclosion data using Bash before plotting in R

fileencryption_java

Java implementation of DES file encryptor/decryptor

formatreferencedatabases_dada2

Repository for scripts to format reference databases for DADA2.

freecount

R shiny applications for various count data processing, assessment, and analyses.

gbcf_chloroplasts

GBCF Romero-Severson Chloroplasts (JRSC24) project repository.

gbcf_genomebrowser

Repository of scripts and files for the GBCF genome browser project.

gbcf_largeaffyrma

Repository for large affymetrix data set RMA normalization

gbcf_rnaseqanalysispipeline

Repository for analysis of RNA-seq data

harvardreu2015_bari

interface_merimaat

Repository for storing addon options.

interpreter_postfix

Prolog interpreter for the PostFix language, based on the PostFix s-expression grammar.

letterfrequencycounter_forking

C program to determine the frequency of letter pairs (capital and lower case) in a given file, using forking.

letterfrequencycounter_multithreading

C program to determine the frequency of letters in a given text file, using multi threading processes.

matrixleastsquaressolver_choleskydecomposition_forwardbackwardsubstitution

Matlab script to solve a system of linear equations with forward and backward substitution, taking advantage of the known zeros of the input symmetric positive definite (SPD) matrix.

matrixneighborhoodsearch_multithreading

C program to create a matrix of random 0's and 1's, then perform neighborhood searches using multithreading.

minishell

Mini shell for performing basic terminal functions.

mltextanalysis_nlp

Python scripts for analyzing input Twitter data and classifying their sentiment/relevance based on input training/test data.

modedi_modelsofevolutionwithdevelopmentalinteractions

A software architecture that incorporates a unique mathematical framework derived by Sean Rice into an object-oriented design that is extendable for custom simulations of user specified populations.

modevo_modelingevolutionarytrajectories

An extensible software infrastructure for modeling the evolutionary trajectories of a species, taking into account underlying developmental interactions.