exam2.md

PRACTICAL EXAM 2

 

Name __________________________________

 

1. Launch a c4.2xlarge instance. (2 points)

2. Update your machine and install the software (build-essential and git) using apt-get just like we did in lab 2,3,4,5,6,7,8,9. (3 points)

3. Install LinuxBrew and gcc and spades and hmmer and then blast and busco like lab 9. (2 points)

4. Download the datasets located here: https://s3.amazonaws.com/macmanes_share/smallreads.2.fq.gz and https://s3.amazonaws.com/macmanes_share/smallreads.1.fq.gz. (3 points)

5. Assemble the dataset using Spades and a kmer value of 39 (10 points)

6. Run BUSCO on the dataset like we did in lab 9, and REPORT THE NUMBER of complete orthologs you assembled. (10 points)