User: rammohanshukla

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10 months ago
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3 years, 1 month ago
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r*************@gmail.com

Posts by rammohanshukla

<prev • 6 results • page 1 of 1 • next >
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Comment: C: Pigengene : BN network using consensus module
... Thanks again, I think I am now understanding the concepts, but few more question though Suppose I have two conditions 1) Control and 2) schizophrenia patient, I believe we cannot have 0 and 1 code assigned to control and schizophrenia but instead, the program will compute a conditional probability ...
written 11 months ago by rammohanshukla10
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Comment: C: Pigengene : BN network using consensus module
... Thanks I have around 20 to 26 modules, Here, I am telling a range coz the number of modules can vary depending on the merge tree cut height selected. Except for 2 phases for which I have 15 samples, I have 20 samples. Based on what I understand from your text,  I first need to compute pigengenes u ...
written 11 months ago by rammohanshukla10
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Pigengene : BN network using consensus module
... Hi Habil, I performed consensus WGCNA analysis to find conserved modules across 5 phases of a disease.  Now, as a next step, I would like to use the eigengenes from these conserved modules and make a Bayesian network similar to what you have made in your papers and use the disorders to see how the ...
pigengene written 11 months ago by rammohanshukla10 • updated 11 months ago by Habil Zare170
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Comment: C: DESeq2: one condition vs multiple combined
... Thanks, Michael, Sorry to bug you again, Can you tell the design to use in case I want to do something similar ? i.e rds <- results(dds, contrast = list( c(g1),c(g2,g3,g4,g5,g6) ) ) Thanks ...
written 19 months ago by rammohanshukla10
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Comment: A: DESeq2: one condition vs multiple combined
... Hi Michael and Konstantin I have a similar problem I have 5 conditions lets call it phenotype: A, B, C, D and E. One of it is control. As like the post in this thread, I too have to compare each condition against all the others but before doing that, I have to control for Age, PMI, pH, and Batch. ...
written 19 months ago by rammohanshukla10
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DESeq2 design, result and inference
... Hi I am new user of DESeq2 and have few questions regarding the design formula, results, and their inferences: I am having four cell types (A,B,C,D) from old and young subject detailed as below: table(pdata$Age) Old Young 47 35 table(pdata$Age, pdata$CellType) A B C D ...
deseq2 written 3.1 years ago by rammohanshukla10 • updated 3.1 years ago by Michael Love25k

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