Difference between revisions of "Galaxy - Bioinformatics"
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===Galaxy Training Network (GTN)=== | ===Galaxy Training Network (GTN)=== | ||
| − | There is a [https://training.galaxyproject.org/ Galaxy training site] that is very useful called GTN (Galaxy Training Network). In particular, this page is interested in the tutorial under [https://training.galaxyproject.org/training-material/topics/metagenomics/ Metagenomics]...and specifically the tutorial labeled: | + | There is a [https://training.galaxyproject.org/ Galaxy training site] that is very useful called GTN (Galaxy Training Network). This site was recently added to the Galaxy Toolbar: |
| + | :[[File:Screenshot 2023-05-25 at 12.19.03 PM.png|thumb|none]] | ||
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| + | In particular, this page is interested in the tutorial under [https://training.galaxyproject.org/training-material/topics/metagenomics/ Metagenomics]...and specifically the tutorial labeled: | ||
: -''16S Microbial Analysis with mothur (extended)'' or | : -''16S Microbial Analysis with mothur (extended)'' or | ||
Revision as of 16:20, 25 May 2023
This page describes the use of Galaxy to analyze 16s rRNA HiSeq sequencing data.
Setting up Account
It is recommended that you setup a free account with Galaxy so that you can save your work. Some feature will give false error messages if not logged in to an account. As a free user you are given a certain amount of storage space.
Galaxy Training Network (GTN)
There is a Galaxy training site that is very useful called GTN (Galaxy Training Network). This site was recently added to the Galaxy Toolbar:
In particular, this page is interested in the tutorial under Metagenomics...and specifically the tutorial labeled:
- -16S Microbial Analysis with mothur (extended) or
- - 16S Microbial Analysis with mothur (short)
The difference between extended and short will be realized once you become familiar with the processing, but for now it is best to use the short version since it uses "workflows" (multi-step processing) as opposed to executing each step individually. You might be tempted to use the extended version so that you will understand all parts, but for now i strongly recommend the short version.
GTN Tutorial Video
There is a video that will walk you thru the 16s tutorial using the short version above:
- - Newest version, May 2023 <--available through a link on the GTN - 16S Microbial Analysis with mothur (short) under "Recordings."
- - a previous recording, March 2021
Data
The tutorial above uses a set of data described in the introduction. If you wish to follow the tutorial using some Monmouth College Data, you can download the 2 files below:
- -
