assignments - AstrobioMike/JPL-HBCU-2020 GitHub Wiki
- Each group to present a 15 minute talk about their assigned software tool
- Information based on material in the relevant manuscript
- All group members can take turns/have designated presenters, up to them
- Mainly focus on the method:
- what's new about it?
- why was it developed?
- what are its advantages and disadvantages?
- How did the authors show their method works?
- Focus on the computational part of the method
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Each team set up their Jetstream instances (1 per team)
- Instance: m1.xxlarge (CPU: 44, Mem: 120 GB, Disk: 60 GB) + attach Volume (250 Gb)
-
Install your assigned software tool:
- follow from here: https://github.com/AstrobioMike/JPL-HBCU-2020/wiki/installing-our-tools
-
Download specific Reference Database file that we have created https://github.com/AstrobioMike/JPL-HBCU-2020/wiki/getting-our-pre-built-reference-databases
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Get the metagenomic dataset
- Each team run your assigned classifier on the dataset, & map the reads to the database
- Example run commands are here: https://github.com/AstrobioMike/JPL-HBCU-2020/wiki/getting-our-pre-built-reference-databases
- You will have to customize the command (think of ways to automate it)
- Record run times, resource usage, errors, warnings, output logs & of course commands. Use: https://hackmd.io for keeping a markdown.