User: cellulebioinfobiscem

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Posts by cellulebioinfobiscem

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Comment: C: Somatic variant calling mutect2 tumour only
... Thanks for your answer but I use BALBcJ and C57BL6NJ specific reference. I don't find any germline resource for this two mouse strain. ...
written 8 months ago by cellulebioinfobiscem10
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Somatic variant calling mutect2 tumour only
... Hi, I have to call somatic variant for mutate sample with no matching normal. I have read the GATK mutect2 page, but still not understand the tumor only mode.. They call that tumor only mode and say "call on each normal sample in this mode", but I don't have normal, so I don't understand what I s ...
gatk snp mutect2 written 9 months ago by cellulebioinfobiscem10 • updated 8 months ago by newbio17230
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Comment: C: N base in RNA-seq data
... Thanks you for tools suggestion, I will test it. ...
written 9 months ago by cellulebioinfobiscem10
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N base in RNA-seq data
... Hi, I do an alignement of RNA-seq publish data with STAR aligner. I see in fastqc that for some sample, N content increase to 12% at base 4 and 22 (warning in orange). Should i cut N part ? Thanks ...
alignment rna-seq written 9 months ago by cellulebioinfobiscem10

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