Asha
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Latest activity by Asha-
Asha commented,
Thank you, Pamela! May be I should post the right command that worked for me, after validating my BAM files: gatk Mutect2 -R hg38.fa -I HT72-p0_DEDUPED_REALIGNED.bam -I HT72-p1_DEDUPED_REALIGNED...
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Asha commented,
Hi Genevieve, Thank you for your response. I realized that the BAM filenames and the headers did not match so, I fixed it. However, I still get the same error. The BAM file/s I'm using is a merged...
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Asha created a post,
A USER ERROR has occurred: Bad input: Sample R-HT77.merged.sorted.bam is not in BAM header: [R-HT72, R-HT72-P2, R-HT72-at-diagnosis-FFPE, R-HT72-p0, R-HT72-p1, R-HT77, R-HT77-P3, R-HT77-P3-Cell-line, R-HT77-p0, R-HT77-p1, R-HT77-p2]
If you are seeing an error, please provide(REQUIRED) : a) GATK version used: GATK4b) Exact command used: gatk Mutect2 -R reference/hg38.fa -I R-HT72-p0.merged.sorted.bam -I R-HT72-p1.merged.sorted....
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Asha created a post,
A USER ERROR has occurred: af-only-gnomad.hg38.vcf.gz because no suitable codecs found
AnsweredI am trying to run recently published mutect2 jointcall in gatk4 and I get the following error. If you are seeing an error, please provide(REQUIRED) : a) GATK version used: gatk4b) Exact command u...