{ "cells": [ { "cell_type": "markdown", "metadata": {}, "source": [ "## Week 4" ] }, { "cell_type": "markdown", "metadata": {}, "source": [ "### Agenda for (02/08/2023)\n", "\n", " - Introduction to High-Performance Computing (HPC) resources at GW\n", " - Lab exercises\n", " - learn how to create virtual environments\n", " - connecting to and working remotely on Cerberus\n", " - install Miniconda and Bioconda on Cerberus\n", " - learn to write sbatch scripts on Cerberus\n", " - microbial genome assembly using SPAdes (on Cerberus)\n", " - obtain assembly metrics using Quast\n", " - download/upload files to/from Cerberus using rsync\n", " - visualization of assemblies using Bandage\n", " - download metagenomic data on Cerberus for next week\n", " - Run a metagenome assembly if there is time\n" ] } ], "metadata": { "kernelspec": { "display_name": "Python 3 (ipykernel)", "language": "python", "name": "python3" }, "language_info": { "codemirror_mode": { "name": "ipython", "version": 3 }, "file_extension": ".py", "mimetype": "text/x-python", "name": "python", "nbconvert_exporter": "python", "pygments_lexer": "ipython3", "version": "3.9.6" } }, "nbformat": 4, "nbformat_minor": 4 }