Showing : GENESIS • reset
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235
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Conditional analysis
GENESIS
6 months ago SuperDad • 0
0
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1
reply
452
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GENESIS: error in crossprod
GENESIS
9 months ago Stephanie M. Gogarten ▴ 870
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2
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734
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GENESIS: Can not use GdsGenotypeReader to read a gds file
GENESIS GWASTools GDSfile
updated 12 months ago by ▴ 870 • written 12 months ago by • 0
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2
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640
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SKAT-O method using GENESIS, question about range iterator using SeqVarWindowIterator
GENESIS SeqVarTools
updated 13 months ago by ▴ 870 • written 13 months ago by • 0
1
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1
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782
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HOW to FIX - PCAir excludes all my SNPs because there is no chromosome information
GENESIS autosome-only=FALSE? PCAir
updated 13 months ago by 67k • written 13 months ago by ▴ 10
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490
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How many ancestries to send in admixMap() when doing a two-way analysis?
GENESIS admixMap
13 months ago mailtoshivam13 • 0
2
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5
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1.1k
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assocTestSingle output with GxE
GENESIS
updated 17 months ago by ▴ 870 • written 17 months ago by • 0
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1
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573
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Reference categories for factors
assocTestSingle GENESIS
written 22 months ago by • 0
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2
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918
views
kinToMatrix creates an empty matrix (except for diagonal 0.5 values)
kingToMatrix GENESIS Plants
2.1 years ago Monica • 0
1
vote
2
replies
4.7k
views
Why are my p-values deflated (GWAS)?
gwas genesis p-value q-q-plot
updated 3.8 years ago by • 0 • written 5.0 years ago by • 0
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1
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1.0k
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Approximations to Est and Est.SE in GENESIS
GENESIS
4.0 years ago Stephanie M. Gogarten ▴ 870
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0
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823
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X chromosome analyses for males in GENESIS
GENESIS
4.1 years ago Stephanie M. Gogarten ▴ 870
0
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3
replies
1.7k
views
Alternate allele for GENESIS?
genesis effect allele association analysis
updated 4.3 years ago by ▴ 870 • written 4.3 years ago by • 0
0
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1
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949
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using GENESIS R package with non-human species
genesis gwastools
4.4 years ago Stephanie M. Gogarten ▴ 870
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2
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1.1k
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Association testing model in GENESIS
genesis
updated 4.4 years ago by ▴ 870 • written 4.4 years ago by • 0
0
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1
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1.4k
views
GENESIS multiple gds files
genesis gds SeqVarData
updated 4.5 years ago by ▴ 870 • written 4.5 years ago by • 0
0
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8
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1.8k
views
Question: GENESIS: assocTestSingle() is not giving any output; guessing that it is arising from GenotypeBlockIterator()
Genesis
4.8 years ago alipka ▴ 10
2
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1
reply
822
views
Does GENESIS match scan IDs for genotype and phenotype data?
GENESIS
updated 4.8 years ago by ▴ 870 • written 4.8 years ago by ▴ 10
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0
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1.0k
views
Normalisation of Data before loading in TMixClust
rna-seq tmixclust k-means clustering gene expression genesis
5.0 years ago astridite • 0
2
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1
reply
970
views
Why did the Wald test disappear from GENESIS?
genesis
5.1 years ago Stephanie M. Gogarten ▴ 870
1
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3
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1.5k
views
Error in fitNullMM from GENESIS package on highly-related samples
GENESIS
5.1 years ago Corey.Cox • 0
1
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1
reply
1.2k
views
Calculating the z score from wald test association results in GENESIS
GENESIS zscore wald
updated 5.2 years ago by ▴ 870 • written 5.2 years ago by ▴ 10
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6
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1.7k
views
Interpreting the output of score test using GENESIS
genesis output score
updated 5.2 years ago by ▴ 870 • written 5.2 years ago by ▴ 10
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4
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1.3k
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Sporadic missingness with admixmmap
genesis admixmap
updated 5.2 years ago by ▴ 870 • written 5.2 years ago by • 0
0
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3
replies
2.0k
views
Can't install Genesis
Genesis Installation
updated 5.3 years ago by ★ 6.6k • written 5.3 years ago by ▴ 10
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3
replies
1.4k
views
GENESIS: ascertainment in GWAS
genesis fitnullmodel gwas ascertainment
updated 5.4 years ago by ▴ 70 • written 5.4 years ago by • 0
6
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11
replies
3.1k
views
Genesis: doubts with admixMAPMM
genesis admixmap
updated 5.6 years ago by ▴ 870 • written 5.6 years ago by • 0
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1
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1.1k
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betas for binary outcome
genesis
5.7 years ago Stephanie M. Gogarten ▴ 870
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13
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2.7k
views
GENESIS pcrelate() write gds file doesn't work
genesis pcrelate gds
updated 5.7 years ago by ▴ 870 • written 5.7 years ago by • 0
4
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2
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2.0k
views
Imputed dosages in GENESIS
genesis gwastools seqarray
6.2 years ago • updated 5.8 years ago Stephanie M. Gogarten ▴ 870
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1
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1.1k
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Efficient resampling in GENESIS or another Bioconductor GWAS package to obtain empirical p-values?
GENESIS GWAS resampling resample statistics
5.8 years ago naglemi ▴ 10
1
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1
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1.1k
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Difference between AssocTestMM (GENESIS) and EMMAX? Why results are different?
GENESIS GWAS AssocTestMM
updated 6.0 years ago by ▴ 70 • written 6.0 years ago by ▴ 10
1
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1
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1.1k
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GENESIS pcrelate() to load gds file and continue where the function broke
genesis pcrrelate gds
updated 6.1 years ago by ▴ 870 • written 6.1 years ago by • 0
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1
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1.0k
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Using previously calculated PCs in GENESIS
genesis snprelate
6.2 years ago Stephanie M. Gogarten ▴ 870
0
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1
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1.2k
views
Unable to build GDS with more than 255 scaffolds?
GENESIS GWAS GDS
updated 6.2 years ago by ▴ 30 • written 6.2 years ago by ▴ 10
0
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1
reply
909
views
selecting SNPs and samples in GENESIS
genesis
6.3 years ago Stephanie M. Gogarten ▴ 870
0
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3
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1.4k
views
GENESIS: assocTestMM error for lack of sex chromosome info (not relevant for this species)
GENESIS assoctestmm GWAS
updated 6.4 years ago by ▴ 70 • written 6.4 years ago by ▴ 10
3
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4
replies
1.7k
views
Why is assocTestMM running with only a fraction of SNPs in genotype data?
LMM GWAS GENESIS assocTestMM
updated 6.4 years ago by ▴ 70 • written 6.4 years ago by ▴ 10
2
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8
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1.9k
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GENESIS: PCAIR: Error in acc(object, NL[cnode]) : unmatched node provided
genesis pcair
6.6 years ago GENOMIC_region • 0
0
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7
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2.1k
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GENESIS: king2mat: subscript out of bounds
genesis
6.6 years ago Stephanie M. Gogarten ▴ 870
40 results • Page 1 of 1
Recent ...
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Answer: scuttle::perFeatureQCMetrics runs very slow for big scRNA-seq data by Aaron Lun ★ 28k
You don't mention how your matrix data is being represented, but if it's a file-backed matrix (e.g., `HDF5Matrix` or one of its variants, b…
Comment: contrast matrix design for a continuous variable by dtzhu337 • 0
Thank you, Gordon. X is time splines for time point, and yes, it's needed. However, I was also thinking to incorporate time point with se…
Answer: contrast matrix design for a continuous variable by Gordon Smyth 52k
Yes, the design and contrasts are correct. Your analysis is also adjusted for covariates defined by X, which I assume is what you want to …
Comment: fail to use addPerROIQC in Rmd by liu.n • 0
That's odd. So it can run successfully within markdown but would be failed when knitting?
Comment: fail to use addPerROIQC in Rmd by joseph.joonsang • 0
> dim(spe) [1] 19962 425
Votes
Answer: contrast matrix design for a continuous variable
A: What's the difference between p.adjust and qvalue?
Answer: DESeq2- merging technical vs biological replicates
Comment: What type of counts data to import for performing Isoform analysis in edgeR
Answer: What type of counts data to import for performing Isoform analysis in edgeR
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