SEQanswers

Go Back   SEQanswers > Search Forums


Showing results 1 to 4 of 4
Search took 0.03 seconds.
Search: Posts Made By: shambo
Forum: Bioinformatics 07-25-2014, 12:49 AM
Replies: 6
Views: 2,736
Posted By shambo
Thanks Brian. I'll give it a shot and report back.

Thanks Brian. I'll give it a shot and report back.
Forum: Bioinformatics 07-24-2014, 05:38 AM
Replies: 6
Views: 2,736
Posted By shambo
I had this thought too. Looking at the bwa...

I had this thought too. Looking at the bwa command line, they specify the seed as -l 20bp with -k4 mismatches. I bumped up the number of mm to -k 5 (just to see) and not many more sites were found....
Forum: Bioinformatics 07-24-2014, 04:59 AM
Replies: 6
Views: 2,736
Posted By shambo
You're absolutely right, there is a 3 base PAM...

You're absolutely right, there is a 3 base PAM (NGG) on the end of the sequence. In my case all the sequences had the NGG when they were supplied to the mapper.

You are also right when you say the...
Forum: Bioinformatics 07-24-2014, 01:40 AM
Replies: 6
Views: 2,736
Posted By shambo
Finding CRISPR gRNA off-target matches using NGS mappers

Hi all,

To keep it brief I have about 3 million, 23bp sequences (gRNAs) which are putative CRIPSR-Cas9 sites, all of which I need to screened for off-target sites against the hg19 genome. I'm...
Showing results 1 to 4 of 4

 


All times are GMT -8. The time now is 11:05 PM.


Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2020, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO