Differential expression and allelic analysis, nonparametric statistics

TUCCA's RNA-Seq Workflow for Read Quantification, Differential Expression, and Pathway Enrichment Analysis

rCAX R package: an R client to access the REST API for the StreamNet Coordinated Assessments tables

Code and scripts for the RNA-seq analysis of project: Deciphering the cellular roles and dissecting functional regions of UPF3A and UPF3B in human NMD

Code and scripts for the RNA-seq analysis of project: SMG5-SMG7 authorize nonsense-mediated mRNA decay by enabling SMG6 endonucleolytic activity

Spawner and fraction wild data for the NWFSC Status Reviews.

An R package for the National Oceanic and Atmospheric Administration dam impact analysis

RNA-seq pipeline in R/Bash enables QC, alignment, read counting, and differential expression using Bioconductor; reproducible workflow on Ubuntu with Conda. 🐙

Datasets and related knowledge from the IYS Salmon Status and Trends workshops

Data from a longterm sea lice monitoring in the Broughton Archipelago, British Columbia, Canada by Alexandra Morton (Raincoast Research) and the Salmon Coast Field Station (salmoncoast.org)

Bioc2022 workshop. SEESAW: Statistical Estimation Of Allelic Expression Using Salmon And Swish

This is an R package that runs the standardized trends metrics used in the 5-year Viability Reports for listed PNW salmonids.

Density of juvenile salmon in Caithness rivers - R-shiny dashboard

Walks through installation and usage of FASTQC, MultiQC, Trimmomatic, and Salmon for transcriptomic data preprocessing. Includes Grid Engine shell scripts that can be looped over many files in a directory.

Repository for bulk RNA-seq analyses (from undergrad 2nd-3rd year) – Reorganized

Dynamic Model

R package for the VRAP program

Some information about whether the log-normal correction should be used in escapement goal analysis.

Code, data, and figures for an experimental pathogen exposure study using wood frogs and American bullfrogs