ARCHAEOLOGY LAB
This is an example of a simple Galaxy Lab page, you can check out the code on GitHub
Welcome to Galaxy Archaeology!
If you get excited about unearthing skeletal remains, cracking open fossils and studying their ancient DNA, you've come to the right place!
Example section
Common tools are listed here, or search for more in the full tool panel to the left.
A workflow is a series of Galaxy tools that have been linked together to perform a specific analysis. You can use and customize the example workflows below. Learn more .
You can upload your data to Galaxy using the Upload tool from anywhere in Galaxy. Just look for the "Upload data" button at the top of the tool panel.
We recommend subsampling large data sets to test tools and workflows.
A useful tool is
seqtk_seq,
setting the parameter at "Sample fraction of sequences"
Example section with subsections
The tools in this section have been divided into subsections to make it
easier for users to find the tools they need. This must replace the
entire value of the content key i.e. you can't mix
subsections with standalone items.
This is my first subsection
Another subsection
A workflow is a series of Galaxy tools that have been linked together to perform a specific analysis. You can use and customize the example workflows below. Learn more.
Assembly with PacBio HiFi data
This How-to-Guide will describe the steps required to assemble your genome on the Galaxy Australia platform, using multiple workflows.
Assembly with Nanopore data and polishing with Illumina data
This tutorial describes the steps required to assemble a genome on Galaxy with Nanopore and Illumina data.
Yes. Galaxy Australia has assembly tools for small prokaryote genomes as well as larger eukaryote genomes. We are continually adding new tools and optimising them for large genome assemblies - this means adding enough computer processing power to run data-intensive tools, as well as configuring aspects such as parallelisation.
Please contact us if - you need to increase your data storage limit - there is a tool you wish to request - a tool appears to be broken or running slowly
- See the tutorials in this Help section. They cover different approaches to genome assembly - Read the methods in scientific papers about genome assembly, particularly those about genomes with similar characteristics to those in your project - See the Workflows section for examples of different approaches to genome assembly - these cover different sequencing data types, and a variety of tools.
And that's the end of the example Galaxy Lab!
Visit the docs to learn how to build your own.
Contributors
Cite this Lab
- Doe, John; Smith, Jane (2020). An Example Galaxy Lab. Journal of Galaxy Labs. 10.1234/example.doi.