Metagenomics Workshop 2024 UTSC
INSTALLATION
Install
WSL
Installing FastQC on Linux
Update your system
Install FastQC
Verify the installation
Installing FastQC on macOS
Install Homebrew
Install FastQC
Verify the installation
Installing Bowtie2
Bowtie2 on Ubuntu/Linux
Bowtie2 on macOS
MEGAHIT (WSL)
MEGAHIT (Mac)
CONCOCT Installation
Prodigal Installation
Prokka Installation
eggNOG-mapper Installation
Requirements
Installation
Setup
Optional Tools
PhyloPhlAn3 Installation
Installing CheckM (WSL)
Installing CheckM (Mac)
HTSeq Installation
MetaBAT2
Installation
Samtools Installation
CODE & MATERIALS
Code & Materials
Obtaining Sequence Data
Trimming Sequence Data
Removing Host Contaminants
Samtools
Assembly (MEGAHIT)
MetaBAT2 (Binning)
CheckM (Completeness and Contamination)
Prodigal (Gene Prediction)
Prokka (Genome Annotation)
HTSeq (RNA-seq counting)
RESOURCES
Resources
Workshop Highlights
Workshop Poster
Participants & Feedback
Contact
Metagenomics Workshop 2024 UTSC
Code & Materials
Prokka (Genome Annotation)
View page source
Prokka (Genome Annotation)
prokka
--outdir
mydir
--prefix
mygenome
final.contigs13.fa