Welcome to Metagenomic methods for microbial ecologists’s documentation!¶
Contents:
- Day 1: Introduction
- Preprocessing & quality filtering using a Snakemake workflow
- Introduction to Snakemake
- Launch Snakemake
- Create a rule to unzip FASTQ files
- Creating quality plots using FASTQC
- Trim low quality reads and remove adapters
- Create quality plots of the trimmed data
- Create quality plots using R
- Merge paired-end Illumina data
- Day 4: Metagenomic assembly and binning