XiuChao Wang
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Activity overview
Latest activity by XiuChao Wang-
XiuChao Wang commented,
GenomicsDBImport command shown below: Is this format reasonable ? chrom=( chr6 chr7 chr8 chr9 chrX ) for i in ${chrom[@]};do { $gatk --java-options "-Xmx100g -DGATK_STACKTRACE...
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XiuChao Wang commented,
thanks for your reply! 1. The contents of the output folder shown above, are they correct ? 2. "--sample-name-map map.list" , map.list content like this, is there a problem with this format? C...
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XiuChao Wang commented,
the outdir chrom_merge_vcf_5: [wang@21:32:28 chrom_merge_vcf_5]$tree -a.├── chr7$1$159345973│ ├── .__9972363a-2dc0-4b59-873d-1e60d362ef1247323956225792_1708160735373│ │ ├── AD.tdb│ │ ├──...
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XiuChao Wang commented,
“Can you elaborate a little more on your compute environment? ” ： HaplotypeCaller Command shown below per chromosome. chrom=( chr1 chr2 chr3 chr4 chr5 chr6 chr7 chr8 chr9 chr10 chr11 chr12 chr13 c...
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XiuChao Wang created a post,
CombineGVCF on chr6，7，8，9，X hg38 running for ever~
REQUIRED for all errors and issues: a) GATK version used: gatk4-4.2.6.1 b) Exact command used: gatk --java-options "-Xmx40g" CombineGVCFs \ -R ${ref} \ ${sample_gvcfs}...