User: n.deshpande

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Posts by n.deshpande

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Answer: A: Considering both : batch effect and patient to patient variation in EdgeR analys
... Thanks Aaron for the explanation.   I will use this design,   Cheers,   Nandan     ...
written 4.0 years ago by n.deshpande0
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Considering both : batch effect and patient to patient variation in EdgeR analysis
... Hi all, I have a question about the model to be defined for my the design in my EdgeR analysis..   My experiment design includes 9 patients : one sample per condition per patient  i.e. Two sample per patient 'C1D1' & 'EOT' RNASeq data was generated in  2 batches ('BATCH1' & 'BATCH2') ...
rnaseq edger batch effect patient written 4.0 years ago by n.deshpande0
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Answer: A: Query about DEXSeq
... Just to add to the previous post: START : C1D1 End: EOT   regards,   Nandan   ...
written 4.0 years ago by n.deshpande0
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Answer: A: Query about DEXSeq
... Hi Alejandro, Thanks for your response. Appreciate it. 1) My  sampleTable was not properly pasted above.. With reference to the suggestion formulaFullModel= ~sample+exon+batch:exon+patient:exon+condition:exon formulaReducedModel= ~sample+exon+batch:exon+patient:exon ***** I am a bit confused as ...
written 4.0 years ago by n.deshpande0
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Query about DEXSeq
... Hi all, My name is Nandan Deshpande. I am working at the Systems Biology Initiative, UNSW, Sydney. I have started using DEXSeq recently. I have a few questions about using the tool ...I will appreciate if someone can assist me. My experiment design (for cancer data-set) includes 9 patients, 2 con ...
dexseq batch effect pca written 4.0 years ago by n.deshpande0

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