shun inoue
phd candidate, cardiovascular genomics.
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Activity overview
Latest activity by shun inoue-
shun inoue commented,
Hi Genevieve, Exactly. Thanks to your advice, I do not encounter any errors now. As you pointed, i had to require larger memories, but requiring larger memories and cores takes too long to start an...
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shun inoue commented,
Hi, Genevieve, Thank you for your proposal. I am analyzing in a local HPC of my institute. Previously, I specified 16 cores and 16GB each. Then, HPC manager send me a following alert. """The follow...
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shun inoue created a post,
python exited with 135 in germlinecnvcaller
Dear GATK team, hi. now I am discovering for pathogenic CNV via GATK germline CNV pipelin. Previously, I analyzed the other cohort and pipeline worked well. However, I faced with the following err...
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shun inoue commented,
Hi Genevieve, Thank you for your attention. Prior to adjustment of the hyperparameters, I excluded several samples according to the distribution of mean coverage, total reads, etc. Then, aforementi...
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shun inoue commented,
Hi Genevieve, Thank you for your kind response. I confirmed the execution of FilterIntervals prior to DeterminGermlineContigPloidy. Then, How can i exclude extra contig from the analysis? I am ass...
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shun inoue created a post,
DetermineGermlineContigPloidy error with exome germline data
AnsweredThank you for providing excellent pipelines. Now, I am trying to detect germline CNV according to the tutorial (https://gatk.broadinstitute.org/hc/en-us/articles/360035531152--How-to-Call-common-an...