GCB535
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greenelab
Materials for GCB535 at Penn.
We need to add a data folder for ENCODE I so that we are not unnecessarily collecting large data files from students
We could probably make this a bit better: 1. Q8 is always a problem 2. What's the differences in NCBI between "placed" and "product"? 3. There are trick questions (amino...
When students attempted to run the genomecov command via bedtools, uniformly the process died at some point. However, the same command executes just find from the main course project. Perhaps...
We think we should have them: 1. Make a variable called "ing" with data 2. then another variable "us", also with data 3. Make a scatter plot of these two...
Reported by @oshalem in case there are questions.
As of January 2019 there's a new version of MEME-suite, which give slightly different answers from last year and requires updating the HW answers for the Motif I assignment.
I think this is a known issue, but a student expressed some irritation about the 'lack of reproducibility' if two students queue up the same command line but get radically...
We had trouble with [JASPAR](http://jaspar.genereg.net/) in 2018. The error message given stated: > Matrix align tool is currently under maintenance. We apologise for any inconvenience that this may have caused...
make a note on the homework that the file needs to be downloaded with wget, not curl, since curl does not follow redirects (it will just download the html, which...
This year, we had UNIX-I students clobber some files, and we forgot that we could curl/wget the files from github directly to replace them (it ended up being a huge...