BenjaminJPerry

gbs_prism

refactored GBS processing

melseq_prism

melseq prism

Phyre2BatchPrep

Utility script to prepare batch submission to Phyre2

seq_prisms

Quality control analyses and plots for pools of sequence files

TnSeq

Scripts and Archive for TnSeq Analysis

wgs_prism2

Production and q/c for wgs sequencing runs

2021Metagenomics

Archive of slurm and shell scripts.

HybridAssembly

Hybrid Assembly Scripts for Nanopore + Illumina Data

IlluminaAssembly

learnGO

Learning GO for CLUs

Metagenomics-Index-Correction

MT-QC

QC of R-MT data

nanoGuppy

PhD

Archive of PhD Research

R-ecology-lesson

Data Analysis and Visualization in R for Ecologists

RNASeq

Scripts and Archive for RNASeq Analysis

SMK-GATK

A Snakemake workflow to process single samples or cohorts of Illumina paired-end sequencing data (WGS or WES) using trim galore/bwa/GATK4/parabricks.

Snakemake-Metagenomics

Snakemake workflow for metagenomic analysis of rumen samples from sheep

snakemake-tutorial

Working through the snakemake tutorial.

Struo2-AgR-Tweaks

Tweaks to Struo2 for reproducibility and performance

viruses

virus stuff

workflows-snakemake

One-day Snakemake workshop.