Simon Hellemans
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Activity overview
Latest activity by Simon Hellemans-
Simon Hellemans commented,
Dear Genevieve, Thanks you for your reply. As mentioned in my previous post, R1 and R2 both contain 117697682 reads. As suggested, I re-ran everything without repeat-masking the genome. At first, I...
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Simon Hellemans commented,
Dear Genevieve, I did not subsample the reads prior aligning them. Also, I just confirmed again using fastp that reads are indeed all mated. Here is the corresponding extract of the fastp outpu...
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Simon Hellemans commented,
Dear Genevieve, Thank you for your reply. I was indeed running it in VERBOSE mode the first time, so I did not see this error initially. I just ran ValidateSam on the unfixed BAM in SUMMARY mode, a...
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Simon Hellemans created a post,
FixMateInformation does not solve ERROR:MATE_NOT_FOUND
Dear, My ultimate goal is to use GATK HaplotypeCaller to identify the number of mutations in a clonal non-model insect by using the paired-end reads of one offspring to the assembled genome of its ...