{ "cells": [ { "cell_type": "markdown", "metadata": {}, "source": [ "## Week 5" ] }, { "cell_type": "markdown", "metadata": {}, "source": [ "### Agenda for (02/15/2023)" ] }, { "cell_type": "markdown", "metadata": {}, "source": [ "- Lecture (Metagenomics and uncovering the hidden microbial majority)\n", "- Lab exercises\n", " - Recap job submission on Cerberus\n", " - Install tools needed for today on Cerberus\n", " - Run Megahit metagenomic assembly on Cerberus\n", " - Run metaSPAdes metagenomic assembly on Cerberus\n", " - Download data for unicycler assembly\n", " - Run unicycler assembly on Cerberus\n", " - Run Quast on metaSPAdes and Megahit assemblies on your own after class\n", " - Run Metabat2 on your own after class\n", " - Run CheckM on your own after class\n", " - Run RefineM on your own after class\n", " - Answer the questions at the end of the exercises (these will be on the next assignment)" ] } ], "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 }