Showing : GENESIS • reset
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306
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Conditional analysis
GENESIS
10 months ago SuperDad • 0
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1
reply
616
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GENESIS: error in crossprod
GENESIS
14 months ago Stephanie M. Gogarten ▴ 890
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2
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926
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GENESIS: Can not use GdsGenotypeReader to read a gds file
GENESIS GWASTools GDSfile
updated 16 months ago by ▴ 890 • written 16 months ago by • 0
0
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2
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749
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SKAT-O method using GENESIS, question about range iterator using SeqVarWindowIterator
GENESIS SeqVarTools
updated 17 months ago by ▴ 890 • written 17 months ago by • 0
1
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1
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939
views
HOW to FIX - PCAir excludes all my SNPs because there is no chromosome information
GENESIS autosome-only=FALSE? PCAir
updated 17 months ago by 68k • written 17 months ago by ▴ 10
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587
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How many ancestries to send in admixMap() when doing a two-way analysis?
GENESIS admixMap
18 months ago mailtoshivam13 • 0
2
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5
replies
1.2k
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assocTestSingle output with GxE
GENESIS
updated 21 months ago by ▴ 890 • written 22 months ago by • 0
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1
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624
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Reference categories for factors
assocTestSingle GENESIS
written 2.2 years ago by • 0
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2
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1.0k
views
kinToMatrix creates an empty matrix (except for diagonal 0.5 values)
kingToMatrix GENESIS Plants
2.5 years ago Monica • 0
1
vote
2
replies
5.1k
views
Why are my p-values deflated (GWAS)?
gwas genesis p-value q-q-plot
updated 4.2 years ago by • 0 • written 5.4 years ago by • 0
0
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1
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1.1k
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Approximations to Est and Est.SE in GENESIS
GENESIS
4.3 years ago Stephanie M. Gogarten ▴ 890
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0
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903
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X chromosome analyses for males in GENESIS
GENESIS
4.4 years ago Stephanie M. Gogarten ▴ 890
0
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3
replies
1.9k
views
Alternate allele for GENESIS?
genesis effect allele association analysis
updated 4.6 years ago by ▴ 890 • written 4.6 years ago by • 0
0
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1
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1.0k
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using GENESIS R package with non-human species
genesis gwastools
4.7 years ago Stephanie M. Gogarten ▴ 890
0
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2
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1.2k
views
Association testing model in GENESIS
genesis
updated 4.8 years ago by ▴ 890 • written 4.8 years ago by • 0
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1
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1.6k
views
GENESIS multiple gds files
genesis gds SeqVarData
updated 4.8 years ago by ▴ 890 • written 4.9 years ago by • 0
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8
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2.0k
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Question: GENESIS: assocTestSingle() is not giving any output; guessing that it is arising from GenotypeBlockIterator()
Genesis
5.2 years ago alipka ▴ 10
2
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1
reply
925
views
Does GENESIS match scan IDs for genotype and phenotype data?
GENESIS
updated 5.2 years ago by ▴ 890 • written 5.2 years ago by ▴ 10
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0
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1.1k
views
Normalisation of Data before loading in TMixClust
rna-seq tmixclust k-means clustering gene expression genesis
5.3 years ago astridite • 0
2
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1
reply
1.1k
views
Why did the Wald test disappear from GENESIS?
genesis
5.4 years ago Stephanie M. Gogarten ▴ 890
1
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3
replies
1.6k
views
Error in fitNullMM from GENESIS package on highly-related samples
GENESIS
5.5 years ago Corey.Cox • 0
1
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1
reply
1.3k
views
Calculating the z score from wald test association results in GENESIS
GENESIS zscore wald
updated 5.5 years ago by ▴ 890 • written 5.5 years ago by ▴ 10
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6
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2.0k
views
Interpreting the output of score test using GENESIS
genesis output score
updated 5.5 years ago by ▴ 890 • written 5.5 years ago by ▴ 10
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4
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1.4k
views
Sporadic missingness with admixmmap
genesis admixmap
updated 5.6 years ago by ▴ 890 • written 5.6 years ago by • 0
0
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3
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2.3k
views
Can't install Genesis
Genesis Installation
updated 5.7 years ago by ★ 6.6k • written 5.7 years ago by ▴ 10
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3
replies
1.5k
views
GENESIS: ascertainment in GWAS
genesis fitnullmodel gwas ascertainment
updated 5.7 years ago by ▴ 70 • written 5.7 years ago by • 0
6
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11
replies
3.4k
views
Genesis: doubts with admixMAPMM
genesis admixmap
updated 6.0 years ago by ▴ 890 • written 6.0 years ago by • 0
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1
reply
1.2k
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betas for binary outcome
genesis
6.0 years ago Stephanie M. Gogarten ▴ 890
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13
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3.0k
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GENESIS pcrelate() write gds file doesn't work
genesis pcrelate gds
updated 6.1 years ago by ▴ 890 • written 6.1 years ago by • 0
4
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2
replies
2.1k
views
Imputed dosages in GENESIS
genesis gwastools seqarray
6.5 years ago • updated 6.2 years ago Stephanie M. Gogarten ▴ 890
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1
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1.2k
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Efficient resampling in GENESIS or another Bioconductor GWAS package to obtain empirical p-values?
GENESIS GWAS resampling resample statistics
6.2 years ago naglemi ▴ 10
1
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1
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1.2k
views
Difference between AssocTestMM (GENESIS) and EMMAX? Why results are different?
GENESIS GWAS AssocTestMM
updated 6.4 years ago by ▴ 70 • written 6.4 years ago by ▴ 10
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1
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1.2k
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GENESIS pcrelate() to load gds file and continue where the function broke
genesis pcrrelate gds
updated 6.5 years ago by ▴ 890 • written 6.5 years ago by • 0
0
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1
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1.1k
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Using previously calculated PCs in GENESIS
genesis snprelate
6.6 years ago Stephanie M. Gogarten ▴ 890
0
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1
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1.3k
views
Unable to build GDS with more than 255 scaffolds?
GENESIS GWAS GDS
updated 6.6 years ago by ▴ 30 • written 6.6 years ago by ▴ 10
0
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1
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1.0k
views
selecting SNPs and samples in GENESIS
genesis
6.7 years ago Stephanie M. Gogarten ▴ 890
0
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3
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1.5k
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GENESIS: assocTestMM error for lack of sex chromosome info (not relevant for this species)
GENESIS assoctestmm GWAS
updated 6.7 years ago by ▴ 70 • written 6.7 years ago by ▴ 10
3
votes
4
replies
1.8k
views
Why is assocTestMM running with only a fraction of SNPs in genotype data?
LMM GWAS GENESIS assocTestMM
updated 6.7 years ago by ▴ 70 • written 6.7 years ago by ▴ 10
2
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8
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2.1k
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GENESIS: PCAIR: Error in acc(object, NL[cnode]) : unmatched node provided
genesis pcair
6.9 years ago GENOMIC_region • 0
0
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7
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2.2k
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GENESIS: king2mat: subscript out of bounds
genesis
6.9 years ago Stephanie M. Gogarten ▴ 890
40 results • Page 1 of 1
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Answer: Log2foldchange strange behavior by ATpoint ★ 4.8k
The `results()` output you show is perfectly in line with the oputput of `plotCounts()`, hence it is not a DESeq2 issue. UBE3A is higher in…
Comment: DeSeq Strategies for run to run Replication by i.c.denhond • 0
Dear Michael, could you please comment on how to properly apply a vst transformation to a new dataset (in this case, left-out samples)? I …
Comment: Log2foldchange strange behavior by RambakKulit • 0
Okay, I'm attaching those now. Just to provide a bit more context for the results below: I downloaded both count and TPM data from the GTEx…
Comment: Log2foldchange strange behavior by ATpoint ★ 4.8k
This cannot be answered here like this. Your results tables are not direct DESeq2 output, maybe it's a merging error during generation of t…
Comment: RE:proper pooling design by bicecac533 • 0
I look forward to reading more articles like this! [Stickman Boost][1] [1]: https://stickmanboost.com
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Answer: Enhanced Volcano Error when drawing connectors
Answer: Origin of the labels for the SingleCellMultiModal dataset
Answer: PhD scholar
Answer: how to use `arrayWeightsQuick()`?
Answer: how to use `arrayWeightsQuick()`?
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