User: keremwai

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keremwai10
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Posts by keremwai

<prev • 6 results • page 1 of 1 • next >
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Forum: Preferred cloud environment for genomics.
... Hi, What would you advise the best cloud environment for genetics? I would love to just hear what is it, and if you feel like please add why. My needs for the time are mainly for RNA-seq, alignment and so on.... Thank you in advance, Kerem ...
alignment forum next-gen rna-seq sequencing written 26 days ago by keremwai10 • updated 24 days ago by enquiry.ticacademy0
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Answer: A: What is the best public database for Homo-sapiens proteins ?
... Uniprot and Pfam are great and hand curated. I know less the others. ...
written 3 months ago by keremwai10
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How do I assess the quality control of Clariom_S_Human CEL files?
... How do I assess the quality control of Clariom_S_Human CEL files? Preferably using R. Does the oligo::rma normalization consider the positive and negative controls along with the ERCCs? Can I assume after RMA the normalized arrays are valid? Does the RMA function inform if there is a problem? Aft ...
array R microarray clariom.s.human written 4 months ago by keremwai10 • updated 4 months ago by zx87549.4k
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Comment: C: Best way for CNV phenotype association analysis.
... Thank you Efstathios-Iason, I will try the package ...
written 5 months ago by keremwai10
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Comment: C: Best way for CNV phenotype association analysis.
... Thank you. Would it be different for cancer somatic mutations? ...
written 5 months ago by keremwai10
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Best way for CNV phenotype association analysis.
... Hi, What would be the best way to do CNV (Copy number variation) association with a phenotype? Something like DESeq2/edgR for expression, or association of SNVs to phenotypes but for CNV. As a data source I have the Broad's CCLE (cancer cell line encyclopedia) and I want to associate CNV genetics wi ...
genome R cna cnv sequencing written 5 months ago by keremwai10 • updated 5 months ago by svlachavas680

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