User: keeley.brookes

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Posts by keeley.brookes

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How can I annotate a vcf file created with Freebayes with rs#
... Hi All, I have a vcf file created in freebayes (v.0.0.2), and I would like to annotate the file with rs# id so I can filter them out and obtain just a list of novel variants. I have tried to use VCF-VCF intersect but I don't think it has given me what I want. The final aim is to create a file wi ...
annotate vcf annovar dbsnp snpeff written 13 days ago by keeley.brookes0 • updated 12 days ago by Jennifer Hillman Jackson24k
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BAM file problems, sorting filtering and running naive variant called
... Hi All I have aligned by RNA-seq using BWA for Illumina - as I would like to use Naive Variant Caller downstream. I converted my BWA SAM files to BAM files, and merged the four technical replicates I had. I them sorted the file - using SAM tools and although green it had this error attached Ign ...
nvc hisat2 freebayes variant rna-seq written 19 days ago by keeley.brookes0 • updated 17 days ago by Jennifer Hillman Jackson24k

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