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Forum: Bioinformatics 12-04-2016, 10:53 AM
Replies: 347
Views: 185,363
Posted By chiayi
Hi Brian, bzip2 was in my path yet pbzip2...

Hi Brian,

bzip2 was in my path yet pbzip2 was not. As you predicted, when I checked the status using "top -c" a java was hanging around with 0 cpu utilization. I intalled pbzip2 and the issue was...
Forum: Bioinformatics 12-03-2016, 05:37 PM
Replies: 347
Views: 185,363
Posted By chiayi
Sure. This is where the run would...

Sure.



This is where the run would stuck.
Forum: Bioinformatics 12-03-2016, 03:01 PM
Replies: 347
Views: 185,363
Posted By chiayi
Hi Brian, Thank you again. That was very...

Hi Brian,

Thank you again. That was very helpful. One last quesiton, is bz2 not compatible with BBDuk? Some of my files are bz2 and for those runs it looked like the files were not loaded and the...
Forum: Bioinformatics 12-03-2016, 02:06 PM
Replies: 347
Views: 185,363
Posted By chiayi
Thank you, Brian. I guess I was confused with...

Thank you, Brian. I guess I was confused with adapter trimming and adapter filtering, and it's clear now with your explanation. I have a follow-up question. I thought the percentage of reads with...
Forum: Bioinformatics 12-02-2016, 08:57 PM
Replies: 347
Views: 185,363
Posted By chiayi
Hi Brian, I just started to try BBDuk after...

Hi Brian,

I just started to try BBDuk after being too used to the alternative trimmer and would like some stimulant. I found the functions in BBTools comprehensive and sophisticated. Thank you!
...
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