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amplicon_processing

Scripts and workflows for MiSeq amplicon processing

aplysia_immunome

in silico survey of Aplysia californica RefSeq proteome for putative immune associated genes using OrthoFinder and InterProScan

expression_dynamics_aabv

Code used for data analysis and visualization of Virology publication "Expression Dynamics of the Aplysia Abyssovirus" 2023. The purpose of this repo is for the code and analysis to be reviewed and, if need be, reproduced.

fastqc_parser

Small tool to parse and split data from fastqc output.

fopsbet2.1_assembly

Scripts used for the assembly of the Gulf toadfish de novo genome and transcriptome assembly and annotations from PacBio HiFi Reads.

hello-world

just a test

host_response_aabv_analysis

Code used for analysis of Aplysia californica response to Aplysia Abyssovirus 1 infection in neurons and gill

kron_aplysia_alzheimer-s_model

Code used for in silico study on the viability of Aplysia californica as a model organism for Alzheimer's Disease

kron_cohort77_coexpression_analysis

Code used for CoExpression Analysis on Aplysia californica sensory neurons

kron_cohort77_differential_expression_analysis

Code used to analyze data from a time series RNAseq experiment in Aplysia californica senory neurons at the University of Miami RSMAS

mbe702report

pcfb_fall_2019_tidyverse

A short introduction to the R packages dplyr and tidyr from the Tidyverse suite.

popgen

Scripts for CompBio-athon PopGen instructional sessions: SNP analyses, Population Differentiation analyses, Outlier analyses & GWAS, eQTL analyses

rnaseq

Scripts for CompBio-athon RNAseq instructional sessions: QC & Alignment, Differential Gene Expression, BLAST & Annotation, WGCNA

tidytuesday

All of the Tidy Tuesday projects from the MBE Coding Club

what-the-awk-sed

intorduction to awk and sed for biologists