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Core NGS Intro class zoom - Shared screen with speaker view
Md Hassan Uz Zaman
01:23:36
Could different sources have different annotation information?
Vy Dang
01:25:13
Should be very similar because its the same gene
Riddhiman Garge
01:29:44
@Hassan, it depends on the assembly and annotation. Certain reference assembly are higher qualities than others. So the annotations may differ.
Dennis Mishler
01:30:20
@vy, getting a bit ahead, but for the refence genomes listed on the wiki, are we supposed to be able to copy all of those? I get 3 (instead of 4), and 2 of these are the same, but 1 is different.
Vy Dang
01:31:32
when I looked at the description, they are all different? @dennis
Dennis Mishler
01:31:57
OK, thanks!
Vy Dang
01:32:35
I think Anna has a chart explaining which reference belongs to what spp..etc.,
Vy Dang
01:32:41
She just said it :)
Jon Pierce
01:42:48
I have to leave for a bit, I'll be back
Anna Battenhouse
02:20:00
idev -m 120 -A UT-2015-05-18 -N 1 -n 24 --reservation=intro_NGS
Dennis Mishler
02:20:58
I have 147! :-)
Melanie A. Murphy
02:21:40
I am getting an error:ls5:/scratch/07480/mmurph23/core_ngs/references/bwa/sacCer3$ ~$ hostname-bash: ~$: command not found
Melanie A. Murphy
02:22:43
fixed it.
Dennis Mishler
02:25:53
Anna, quick question about the symbolic links?
Dennis Mishler
02:32:01
If we wanted to do them back to back in the command line, what would you recommend us to do? We have done a couple ways of running multiple command lines at once
Shuge Sun
02:34:53
But my CPU time is the same with the real time..
Shuge Sun
02:35:28
[main] Real time: 6.577 sec; CPU: 6.504 sec
James Dong
03:25:07
how do you exit out of less yeast_pairedend again?
Jennifer Tang
03:25:38
q
James Dong
03:25:48
Thank you!
Dennis Mishler
03:45:26
heads up, there is a typo "pariedend…" for the flagstat.txt file.
Dennis Mishler
03:45:29
on the wiki
Dennis Mishler
03:45:50
I kept getting "no file", just fyi