Arun Ramani

speed up options

2

Hello, I am using svtyper on the results of a lumpy somatic vcf and am therefore running it with 2 bwa-mem bams and 2 split reads bam files. I find...

gemini plugin

2

Hello, I recently installed puzzle and was hoping to view a gemini db with it. The install was fine ( I think). There are a couple of warning with the...

AttributeError: 'Seq' object has no attribute 'defined'

2

Hello, I am getting the following error when running the tool on a human sample. I don't see any prior reference to this and was wondering if you have any...

Add a “date updated” field to patient to reduce search space for bulk queries

2

Running an all vs all query takes a very long time as we have thousands of samples and have to match them against many thousands in each of the nodes....

Hello, I am working with version 2.2.1 and while the pipeline runs successfully I notice that the provenance_report.groovy is missing from the current version. Is this because the script does...

New design issue

4

Hello, I am testing cpipe for analyzing our data and am trying to understand how the design files are generated. I have created my bed file and am executing `new_target_region.sh`...