2017-cicese-metagenomics
1.0
Site
Environmental Metagenomics Workshop
Welcome!
Start an Amazon Web Services computer:
Intro to Shell Lesson
The Shell
For Future Reference
Finding files
Running command-line BLAST
Short read quality and trimming
Run the MEGAHIT assembler
Evaluating Metagenomic Assemblies
Annotation with Prokka
Comparing datasets using sourmash
A sourmash tutorial
K-mers, k-mer specificity, and comparing samples with k-mer Jaccard distance.
Binning a Metagenomic Assembly
Gene Abundance Estimation with Salmon
Mapping
Slicing and dicing with k-mers
Using Anvi’o to Knit Everything Together
Using and Installing Circos
Workflow and repeatability discussion
Data
Building this site on your own
2017 / September / Environmental Metagenomics
Day 2 - installation instructions
K-mer Spectral Error Trimming
Page
Logging in to your remote machine with SSH
Source
Logging in to your remote machine with SSH
ΒΆ
Log in with SSH on Mac and Linux
Log in with SSH on Windows
LICENSE:
This documentation and all textual/graphic site content is released under
Creative Commons - 0 (CC0)
--
fork @ github
.