User: Dave

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Dave0
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Posts by Dave

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Comment: C: LME4 for paired sample, finding changes in protein levels within several groups
... Thanks James I have now submitted the question to stackoverflow.com. ...
written 6 weeks ago by Dave0
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Comment: C: DESEq2 Paired samples: Baseline Versus each Timepoint
... Thanks Michael. Works very nicely. One thing I am not sure about, how does DESEQ2 know which timepoints the user wants to do the paired analysis between ? For example not just "Day0 Versus Day1" but also "Day1 versus Day7" Thanks as always for your help and time.   ...
written 11 weeks ago by Dave0
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Comment: C: DESEq2 Paired samples: Baseline Versus each Timepoint
... Thanks Michael Its no longer giving me the error, the missing columns was causing the problem and it is written down in your docs, my apologizies. I modified the input file inline with equal columns across the groups as below. When convenient would you or someone please check my code below? My qu ...
written 11 weeks ago by Dave0
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Comment: C: DESEq2 Paired samples: Baseline Versus each Timepoint
... Thanks Michael I tried the last few hours to get this working with the link you sent. I keep getting: "Error in checkFullRank(modelMatrix) :   the model matrix is not full rank, so the model cannot be fit as specified." I changed the colnamesin my above design to from (Patient.ID library Timepo ...
written 11 weeks ago by Dave0 • updated 11 weeks ago by Michael Love15k
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Comment: C: DESEq2 Paired samples: Baseline Versus each Timepoint
... Thanks Michael for your answers and time. A follow up question:   How do I compare: Q1) Baseline Vs Day1 for a given library : list of DE genes a) For Library A only :Baseline Vs Day1: list of DE genes a) For Library B only :Baseline Vs Day1: list of DE genes a) For Library C only :Baseline V ...
written 12 weeks ago by Dave0
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DESEq2 Paired samples: Baseline Versus each Timepoint
... Hello   I am a newbie and I have the following experimental factors as below. I read very carefully the different posts and tutorial but I am still uncertain on how to design my experiment formula. I wanted to know how to use DSEQ2 to look at the paired samples to see which genes are being differ ...
deseq2 written 10 months ago by Dave0 • updated 10 months ago by Michael Love15k

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