User: akutasame

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akutasame20
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20
Status:
New User
Location:
United Kingdom
Last seen:
3 days, 17 hours ago
Joined:
4 years, 2 months ago
Email:
m********@gmail.com

Posts by akutasame

<prev • 15 results • page 1 of 2 • next >
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Comment: A: survival analysis of tcga clinical data
... That was helpful, Thank you ...
written 3 days ago by akutasame20
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survival analysis of tcga clinical data
... Hi all, I want to do survival analysis of clinical data but I am not sure about censoring TCGA clinical data? I have ''daysto_lastfollowup", "daysto_death", "vital status" and "overall_survival_months". What I did is **Method 1:** daysToEvent <- rep(NA, nrow(tcgaClinical)) daysToEvent ...
tcga survival clinical written 5 days ago by akutasame20
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Comment: A: RMA background correction normalization only
... Nope, I am doing probe level Anova, I did RMA background correction and quantile normalization only, I did not do summarization. But I just found that RMA background correction is taking log2 base raw intensities. http://www.plexdb.org/modules/documentation/RMAexplained.pdf Thank you for your comme ...
written 4.0 years ago by akutasame20
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Comment: A: RMA background correction normalization only
... I really need an answer, please make a comment if you have an idea. ...
written 4.0 years ago by akutasame20
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RMA background correction normalization only
... Hi,  Does the RMA method for background correction and normalization (not summarization) give log2 transformed intensities? or which step gives log transformed values? Thank you  in advance, Good luck in your studies ...
myposts written 4.0 years ago by akutasame20 • updated 8 months ago by Kevin Blighe52k
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Comment: A: which genes are up-down regulated from Anova?
... Okay, I got p values and also I used bonferroni method. Then, what should I do ? ...
written 4.1 years ago by akutasame20
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Comment: A: which genes are up-down regulated from Anova?
... Thank you Mr. Devon, I m really wondering if I can understand up or down regulated genes from Anova coefficients just like the following. Is that coef(lv) result giving any hint for regulated genes? Df Sum Sq Mean Sq F value Pr(>F) A 2 1383 692 1.916 ...
written 4.1 years ago by akutasame20 • updated 11 days ago by RamRS25k
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which genes are up-down regulated from Anova?
... Hi, Is there any way to understand which genes are up or down regulated just from Anova or from linear model coefficients? Thanks in advance ...
gene written 4.1 years ago by akutasame20
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Using pm() function after normalization
... Hi, I m doing microarray affymetrix analysis, I did MAS5.0 and RMA background correction, and quantile normalisation. My question is " does it make sense to take pm() of normalized data in R? "   and proceed with that for anova? Thanks for help ...
myposts written 4.1 years ago by akutasame20
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Comment: A: probe_id function for affy data
... Any suggestion would be very useful, thanks ...
written 4.1 years ago by akutasame20

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Popular Question 4.0 years ago, created a question with more than 1,000 views. For RMA background correction normalization only

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