User: rednalf

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rednalf60
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Posts by rednalf

<prev • 25 results • page 1 of 3 • next >
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Estimating heritability of a trait from data containing siblings
... Does it make sense to estimate the heritability of a trait from data containing siblings? Due to the presence of siblings, the estimate will be much higher in the sample, right? ...
genome snp written 12 days ago by rednalf60 • updated 11 days ago by Lemire410
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Post-imputation graph: Posterior probability vs. Empirical CDF
... This plot is showing the distribution of the posterior probabilities of the most likely alleles for KIR2DS4TOTAL locus, shown as an empirical cumulative distribution function. What does this mean biologically? My knowledge in statistics is unfortunately quite poor... Note: two curves are plotte ...
genome written 13 months ago by rednalf60
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Comment: A: Obtain genotype data from Eurasian and HapMap populations
... Sure, it is Supplementary Figure 21 of https://www.nature.com/articles/s41590-018-0049-7 ...
written 15 months ago by rednalf60
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Comment: C: Obtain genotype data from Eurasian and HapMap populations
... Thank you Kevin for your answer. I have been doing PCAs using 1KG data (CEU, GIH, MEX, TSI, YRI, etc.) and your tutorial (thank you btw), but since my cohort is French I was interested in plotting my samples with cohorts with a more precise ancestry (only Eurasians) to see if they overlap with Frenc ...
written 15 months ago by rednalf60
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Obtain genotype data from Eurasian and HapMap populations
... I have seen this figure in a Nature Immunology paper. I was wondering where I can find the genotype data from the 36 populations (32 Eurasian populations and 4 HapMap populations) in panel b. Do you know if it is open access? I couldn't find anything online. ![Nature Immunology Figure][1] [1] ...
genome snp written 15 months ago by rednalf60
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Yeo-Johnson and Logarithmic transformation
... Is a Yeo-Johnson transformation using a lambda equal to 0 the same transformation as a logarithmic transformation? ...
R transformation yeo-johnson logarithm statistics written 17 months ago by rednalf60 • updated 17 months ago by Kevin Blighe49k
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Comment: C: Inverse normal transformation
... Yes a lot, thank you very much for your (fast) help! ...
written 17 months ago by rednalf60
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Comment: C: Inverse normal transformation
... I found it in the Supplementary Information, page 18 (https://media.nature.com/original/nature-assets/nature/journal/v490/n7419/extref/nature11401-s1.pdf) ...
written 17 months ago by rednalf60
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Comment: C: Inverse normal transformation
... Thank you. I have considered log, square root, cube root and Johnson transformation for now. I will have a look at DESeq2. What do you think about the inverse normal transformation and the script based on Yang et al.'s paper? ...
written 17 months ago by rednalf60
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Comment: C: Inverse normal transformation
... Thank you for your comment - the information has been added to the initial post. ...
written 17 months ago by rednalf60

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