User: GENOMIC_region

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Posts by GENOMIC_region

<prev • 28 results • page 1 of 3 • next >
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Comment: C: BioMart : Error in getBM, the BioMart webservice returned an invalid result
... Received same error couple hours back today. ...
written 5 weeks ago by GENOMIC_region0
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Comment: C: Genesis: doubts with admixMAPMM
... Thank you. That helps. Is `Stat joint` Joint.beta? (hopefully this is last question. :) ) ...
written 11 weeks ago by GENOMIC_region0
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Comment: C: Genesis: doubts with admixMAPMM
... Thank you very much for helping me with these doubts. :) Is it possible to have beta in this analysis? If so, then It would be great to see it in future releases. ...
written 12 weeks ago by GENOMIC_region0
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Comment: C: Genesis: doubts with admixMAPMM
... Hi, Thank you for clarifying. :) Sorry, for not being clearer regarding my doubt in data structure. `gds.afr` has certain attributes such as snp.id, position and position also, **genotype**. ``` gds.afr <- GdsGenotypeReader(gds, genotypeVar="dosage_afr") gds.afr File: /tmp/Rtmpt27CXN/file7 ...
written 12 weeks ago by GENOMIC_region0
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Comment: C: Genesis: doubts with admixMAPMM
... Hi, Thank you for clarifying. :) Sorry, for not being clearer regarding my doubt in data structure. `gds.afr` has certain attributes such as snp.id, position and position also, **genotype**. ``` gds.afr <- GdsGenotypeReader(gds, genotypeVar="dosage_afr") gds.afr File: /tmp/Rtmpt27CXN/file7 ...
written 12 weeks ago by GENOMIC_region0
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Comment: C: Genesis: doubts with admixMAPMM
... It's true that K-1 ancestries must be used in analysis, otherwise the matrix generated would be non-invertible. Example in manual (Page 5) uses three ancestries, that's why I used three in my data due to three-way admixture present in individuals. dosage_eur <- sample(0:2, nsnp*nsamp, repla ...
written 3 months ago by GENOMIC_region0
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Comment: C: Genesis: doubts with admixMAPMM
... Dear Stephanie, Thank you very much for your prompt and detailed reply. Can you please help with genotype variable in gds data structure (Question 2.a 2.b and 2.c)? Or, as stated: > The admixMapMM and admixMap functions will only use data from the > nodes you specify with the genotypeVar ...
written 3 months ago by GENOMIC_region0
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Genesis: doubts with admixMAPMM
... Hello devels/users, I'm interested in using GENESIS package for admixMapMM function to perform local ancestry association on data on a three-way admixed population. I've inferred local ancestry using RfmixV1. I know location of each SNP, name and per ancestry dosage (0,1,2) information per perso ...
genesis admixmap written 3 months ago by GENOMIC_region0 • updated 3 months ago by Stephanie M. Gogarten660
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Comment: C: HOW TO USE LIMMA PACKAGE
... Do you've case control study design? ...
written 3 months ago by GENOMIC_region0
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Parsing through snp matrix
... Hi All, I'm keen to use genegeneinteractionR package. For that data are read and a snp matrix is generated. When I try to run gene gene interaction I get error ``` GGI.res <- GGI(Y=Y, snpX=data$snpX, genes.info=data$genes.info,method="PCA") ``` Error: `Error in GGI(Y = Y, snpX = data$snpX, ...
snpmatrix ggi written 3 months ago by GENOMIC_region0

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Popular Question 6 months ago, created a question with more than 1,000 views. For status was 'Couldn't connect to server': bioClite
Voter 8 months ago, voted more than 100 times.
Supporter 13 months ago, voted at least 25 times.

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