Beilei Bian
- Total activity 14
- Last activity
- Member since
- Following 1 user
- Followed by 0 users
- Votes 0
- Subscriptions 1
Comments
Recent activity by Beilei Bian Sort by recent activity-
Did you receive my email? Don't worry. I just want to make sure I used the correct address...
-
Hi Bob, Can I send you some files via email?
-
Hi Bob, I used 20 samples but got the same error... And I plotted the results as you suggested... Looks like nothing there. I'm wondering if the first error caused the second error? ERROR 02:13:13,...
-
CopyNumberClass.report.dat ID CALLRATE CNMIN CNMAX CNALLELES NNONREF NVARIANT CNCATEGORY CNDIST NDEL NDUPCNV_19_60798_80848 0.000 NA NA 0 0 0 NA NA 0 0CNV_19_66175_89754 0.000 NA NA 0 0 0 NA NA 0 0...
-
Thank you so much! VariantsPerSample.report.dat is an empty file... GenotypeSiteFilters.summary.dat FILTER SINGLE_COUNT SINGLE_FRACTION TOTAL_COUNT TOTAL_FRACTIONCLUSTERSEP 104529 1.0...
-
Thanks! But I met another problem which is same with https://gatkforums.broadinstitute.org/gatk/discussion/5580/one-plot-error-about-cnvpipeline-stage5 I have inspected some files as you suggested ...
-
Hi Bob, -jobRunner ParallelShell works! Preprocessing completed successfully! Thank you so much. BTW, does the CNV pipeline require a minimum genomes? It must be more than 20? Otherwise, this pipel...
-
I mean about 5000~10000 individuals. I understand... Thanks. Let's go back to my original question... Is it possible to run preprocessing pipeline with Shell? (If that is complicated, no worries, I...
-
Yes, I can and there is a headers.bam.bai produced in metadata. But I will have a large scale WGS dataset later to be run. So in this situation, should I install LSF on the cluster? Or can I just s...
-
Yes, I used shell... I don't have any Cluster management software at this moment. So any solutions for that? Here I only used 2 WGS samples to test if the pipeline can run successfully and see what...