User: BioGeorge

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BioGeorge0
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Posts by BioGeorge

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Problems of Pilon Running with Multiple Samples
... Hi, all. Recently I tried Pilon wishing to get the fixed vcf and the sequences. But there are many samples, each of which was sequenced in two lanes. I've run Pilon with commands like below For one sample: ` java -Xmx10G -jar pilon-xx.jar --genome ref.fa --bam A_L1.bam --bam A_L2.bam --output pi ...
snp written 6 weeks ago by BioGeorge0
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Comment: C: snpgdsLDpruning filtering all SNPs as non-autosomes. Why?
... Thanks. I didn't notice that before. And I found one solution for it from the Bioconductor. When using the SNPRelate, adding the autosome.only=FALSE can solve that. https://support.bioconductor.org/p/114050/ ...
written 9 weeks ago by BioGeorge0
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Comment: A: snpgdsLDpruning filtering all SNPs as non-autosomes. Why?
... Hi, jezkovt. I come across the same questions as you did. Did you figure it out? ...
written 9 weeks ago by BioGeorge0

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