Example plots for Bioc teaching

Skip to first unread message

Kevin RUE

Nov 10, 2020, 6:05:35 PM11/10/20
to bioconduct...@googlegroups.com
Hi all,

I've started generating a few plots following the notes of the meeting, and storing them in a separate Google doc, to avoid overloading the main one.

I'm also storing the code that I've used at https://github.com/kevinrue/bioc-teaching-intro for full reproducibility. (I've hit a timeout using GEOquery where I've had to run a few Shell commands manually, but I've included those in a Shell script in the repo too).

In the notes of the meeting, "Lines showing expression of genes over time." makes total sense, but is slightly complicated for single cell, as individual cells were not tracked over time.
At best I can draw a smooth trend. Have a look at the plots and you'll see what I mean.

One more thing: I only plot counts on a log axis, to avoid any transformation of the data at this point, which means it's not properly normalised. I understood that for the purpose of an introduction lesson, that's what people would be working with.

Happy to hear feedback any time.
I'll kick that along as I get the chance.


Kevin RUE

Nov 22, 2020, 4:59:35 PM11/22/20
to bioconduct...@googlegroups.com
Hi there, 

Just a note that I've added a few plots and updated some of the existing plots.
Can someone just confirm that those emails are coming through and that you have access to the Google Doc?

See you on December 7th !


Charlotte Soneson

Nov 23, 2020, 2:35:39 AM11/23/20
to Kevin RUE, bioconductor-teaching
Thank you, this looks great to me! Emails are coming through and access is all good. 

You received this message because you are subscribed to the Google Groups "bioconductor-teaching" group.
To unsubscribe from this group and stop receiving emails from it, send an email to bioconductor-tea...@googlegroups.com.
To view this discussion on the web, visit https://groups.google.com/d/msgid/bioconductor-teaching/CAJ3Kd8unxe6ypyvmGgt3O-j0UgrbC2X78npF9iVOhy%3DH5H8y%3DA%40mail.gmail.com.

Reply all
Reply to author
0 new messages