Ana Stankovic

Hello, I have been working with Jovana Babic on delivering BWA-MEM2 on Seven Bridges platforms. As we are using pre-selected AWS instances with set CPUs and RAM memory available, we...

Thank you for the fast responce. We will leave a recommendation/warning on this problem, we set a high thread number to fully use the capabilities of the cloud. All the...

As Jovana said, we have ran as a part of our benchmark four samples: - **HG001-NA12878-30x (.gz) (26.8GB) - RAM peak 91.44 GB RAM** - HG001_V2.5_Robot_30x (.gz) (39.9 GB) -...

Yes, there is the .tbi index and the VCF is gzipped. The identical test files were used for both runs, with the only difference in the version of the EPACTS....

After including the FileHandle package in the `epacts.pm` script a new error is shown: `ERROR: Interval size mismatch` I have tried with different BED files, for example setting it for...

Of course. I have tried with just chromosome 20: `20 0 64444167` and all the chrs as well: ``` 1 0 248956422 2 0 242193529 3 0 198295559 4 0...

Yes, I have tried with the `chr` prefix as well, and the same message appears. I do not have a specific use-case, I am testing the usage of this parameter....

I have applied the changes from this commit, unfortunately it is still not working. I created a new kinship file and ran the same variant test, and I still get...

Hello, I just wanted to say that we have successfully ran the EMMAX test with the new kinship file built with the development branch. Thank you for the help!

What I found in the code from EPACTS/scripts/epacts.pm file, you can see that the tool is hard-coded for GRCh37 - chromosome names and lengths that correspond to 37 reference, but...