User: thaisenayane

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Posts by thaisenayane

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Effect prediction of chromosome break
... Hello guys, I really need help with one question. In our lab we found a new chromosome break, in our case two genes rearrange within the same chromosome. This was discovered using sanger sequencing and FISH. Since our rearrange is new in literature I need to predict the effect of this change, so I ...
chromosome written 6 months ago by thaisenayane0
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Batch effect and DE using TCGA and my data
... Hello, I'm trying to perform a differential gene expression analysis using some TCGA data that I reprocessed and my data. However I'm worried about the batch effect. Normally to perform deseq I use this: dds <- DESeqDataSetFromHTSeqCount(sampleTable = d, directory = directory, design= ~ ...
R rna-seq written 7 months ago by thaisenayane0 • updated 7 months ago by swbarnes27.5k
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Fix Mate Information to PE library
... Hello, I have a paired end library, and I want to fix them after my BWA-MEM alignment on galaxy, however I used "FixMate information" in Picard, this is a good option? or Should I try anything else? maybe "Add or Replace Read goups also in picard"? Thanks ...
next-gen written 2.4 years ago by thaisenayane0

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