Evaluation and Annotation

[annamtown]

The goal of this assignment is to create a script directing Quast, MUMmer, and Prokka to evaluate and annotate a genome.

[annamtown]

Exact qsub command used to submit your job: qsub -q rcc-30d genome_eval.sh Version (git log) of your Git repository used to run the job: efa65be URLs on github for your bash script, report.tsv files (1), mummer plots (3), and Prokka *txt files (4): Bash script: https://github.com/annamtown/gene8940/blob/master/genome_eval.sh

report.tsv file: https://github.com/annamtown/gene8940/blob/master/report.tsv

mummer plots: https://github.com/annamtown/gene8940/blob/master/outputpacbio_prefix.png https://github.com/annamtown/gene8940/blob/master/outputref_prefix.png https://github.com/annamtown/gene8940/blob/master/outputspades_prefix.png

Prokka *txt files: https://github.com/annamtown/gene8940/blob/master/PROKKA_10162017.txt (I only had one prokka text file and it was the same in all three of my prokka directories for each assembly)

[annamtown]

I apologize for not completing this before class on Tuesday. I thought we were continuing to work on this script today in class. I ran my job successfully before today, but did not figure out how to move files to my repository from my personal computer until today.

I also just realized that I forgot to place "export" in front of my prokka path, so that is why my text files were not correct.

[cbergman]

• complete and correct with the exception of only one Prokka file (instead of 4) and link to pacbio mummerplot should be https://github.com/annamtown/gene8940/blob/master/outputpacbio_prefixls.png
• grade: 8/10