MOCK EXAM 1¶
To help you prepare for the exam practical, let’s do a mock exam. These are the types of questions I will ask you during the exam. I will give you points for each section, with the idea that I have to help you get past a particular section, you lose those points, but if you can do the rest of the steps, you can still get credit for that.
- Launch a
c4.2xlarge
instance. _______ 5 points
- Update your machine and install the software using
apt-get
just like we did in lab 3. _________ 5 points
- Install HMMER, and download uniprot.pep and Pfam-A.hmm.gz like you did in lab 3. ___________________ 10 points.
- Download the dataset located here:
https://s3.amazonaws.com/gen711/test.dataset.fa
. The dataset you will use inhmmscan
is calledtest.dataset.fa
. _________________ 5 points
- Make the pfam database using
hmmpress
and starthmmscan
like we did in lab 3. ____________________ 10 points (hmmscan
should run for <10 minutes.)
- How many
Ig_2
domains are present in the dataset? _______________ 15 points