Difference between revisions of "Galaxy - Bioinformatics"
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| − | This page describes the use of [https://usegalaxy.org/ Galaxy] to analyze 16s rRNA sequencing data. | + | This page describes the use of [https://usegalaxy.org/ 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. | ||
| + | |||
| + | ===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: | ||
| + | |||
| + | : -''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: | ||
| + | :- [https://youtu.be/CGSBeCW3rpA newest May 2023) <--available through a link on the GTN - 16S Microbial Analysis with mothur (short) under "Recordings." | ||
| + | :- [https://www.youtube.com/watch?v=mto4Nl-q7Kk a previous recording March 2021)] | ||
Revision as of 13:53, 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.
Galaxy Training Network (GTN)
There is a Galaxy training site that is very useful called GTN (Galaxy Training Network). 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:
- - [https://youtu.be/CGSBeCW3rpA newest May 2023) <--available through a link on the GTN - 16S Microbial Analysis with mothur (short) under "Recordings."
- - a previous recording March 2021)