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Hi,
I'm wondering if anyone can let me know what outputs to expect from CNVnator for each step.
I've followed the instructions in the readme file, and except for the last step (-view), calculations appear to proceed without any errors. Only 1 file is being created and updated - the .root file. Are there supposed to be any other directories or files?
When i run the last command (-view), it says it can't find the 'bin' directories or the read depth histogram. These are indeed not in the working directory.
I've asked the author but didn't get any reply.
background: it might be that my inputs are not correct. I'm trying to run this on a .bam file from an alignment of 100 PE reads to a 12kb scaffold/reference. A total of 4291024 reads were placed.
Thanks,
I'm wondering if anyone can let me know what outputs to expect from CNVnator for each step.
I've followed the instructions in the readme file, and except for the last step (-view), calculations appear to proceed without any errors. Only 1 file is being created and updated - the .root file. Are there supposed to be any other directories or files?
When i run the last command (-view), it says it can't find the 'bin' directories or the read depth histogram. These are indeed not in the working directory.
I've asked the author but didn't get any reply.
background: it might be that my inputs are not correct. I'm trying to run this on a .bam file from an alignment of 100 PE reads to a 12kb scaffold/reference. A total of 4291024 reads were placed.
Thanks,
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