Showing : Genesis • reset
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Conditional analysis
GENESIS
18 months ago SuperDad • 0
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1
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757
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GENESIS: error in crossprod
GENESIS
21 months ago Stephanie M. Gogarten ▴ 890
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2
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1.1k
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GENESIS: Can not use GdsGenotypeReader to read a gds file
GENESIS GWASTools GDSfile
updated 23 months ago by ▴ 890 • written 23 months ago by • 0
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2
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914
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SKAT-O method using GENESIS, question about range iterator using SeqVarWindowIterator
GENESIS SeqVarTools
updated 2.0 years ago by ▴ 890 • written 2.0 years ago by • 0
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1
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1.1k
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HOW to FIX - PCAir excludes all my SNPs because there is no chromosome information
GENESIS autosome-only=FALSE? PCAir
updated 2.0 years ago by 68k • written 2.0 years ago by ▴ 10
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697
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How many ancestries to send in admixMap() when doing a two-way analysis?
GENESIS admixMap
2.1 years ago mailtoshivam13 • 0
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5
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1.4k
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assocTestSingle output with GxE
GENESIS
updated 2.4 years ago by ▴ 890 • written 2.4 years ago by • 0
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1
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698
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Reference categories for factors
assocTestSingle GENESIS
written 2.8 years ago by • 0
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2
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1.2k
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kinToMatrix creates an empty matrix (except for diagonal 0.5 values)
kingToMatrix GENESIS Plants
3.1 years ago Monica • 0
1
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2
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5.5k
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Why are my p-values deflated (GWAS)?
gwas genesis p-value q-q-plot
updated 4.8 years ago by • 0 • written 6.0 years ago by • 0
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1
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1.3k
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Approximations to Est and Est.SE in GENESIS
GENESIS
4.9 years ago Stephanie M. Gogarten ▴ 890
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0
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1.0k
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X chromosome analyses for males in GENESIS
GENESIS
5.0 years ago Stephanie M. Gogarten ▴ 890
0
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3
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2.1k
views
Alternate allele for GENESIS?
genesis effect allele association analysis
updated 5.2 years ago by ▴ 890 • written 5.2 years ago by • 0
0
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1
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1.2k
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using GENESIS R package with non-human species
genesis gwastools
5.3 years ago Stephanie M. Gogarten ▴ 890
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2
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1.4k
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Association testing model in GENESIS
genesis
updated 5.4 years ago by ▴ 890 • written 5.4 years ago by • 0
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1
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1.8k
views
GENESIS multiple gds files
genesis gds SeqVarData
updated 5.4 years ago by ▴ 890 • written 5.4 years ago by • 0
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8
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2.3k
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Question: GENESIS: assocTestSingle() is not giving any output; guessing that it is arising from GenotypeBlockIterator()
Genesis
5.8 years ago alipka ▴ 10
2
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1
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1.1k
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Does GENESIS match scan IDs for genotype and phenotype data?
GENESIS
updated 5.8 years ago by ▴ 890 • written 5.8 years ago by ▴ 10
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0
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1.2k
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Normalisation of Data before loading in TMixClust
rna-seq tmixclust k-means clustering gene expression genesis
5.9 years ago astridite • 0
2
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1
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1.2k
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Why did the Wald test disappear from GENESIS?
genesis
6.0 years ago Stephanie M. Gogarten ▴ 890
1
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3
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1.8k
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Error in fitNullMM from GENESIS package on highly-related samples
GENESIS
6.1 years ago Corey.Cox • 0
1
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1
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1.4k
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Calculating the z score from wald test association results in GENESIS
GENESIS zscore wald
updated 6.1 years ago by ▴ 890 • written 6.1 years ago by ▴ 10
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6
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2.2k
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Interpreting the output of score test using GENESIS
genesis output score
updated 6.1 years ago by ▴ 890 • written 6.1 years ago by ▴ 10
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4
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1.6k
views
Sporadic missingness with admixmmap
genesis admixmap
updated 6.2 years ago by ▴ 890 • written 6.2 years ago by • 0
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3
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2.6k
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Can't install Genesis
Genesis Installation
updated 6.3 years ago by ★ 6.6k • written 6.3 years ago by ▴ 10
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3
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1.7k
views
GENESIS: ascertainment in GWAS
genesis fitnullmodel gwas ascertainment
updated 6.3 years ago by ▴ 70 • written 6.3 years ago by • 0
6
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11
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3.7k
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Genesis: doubts with admixMAPMM
genesis admixmap
updated 6.6 years ago by ▴ 890 • written 6.6 years ago by • 0
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1
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1.3k
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betas for binary outcome
genesis
6.6 years ago Stephanie M. Gogarten ▴ 890
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13
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3.3k
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GENESIS pcrelate() write gds file doesn't work
genesis pcrelate gds
updated 6.7 years ago by ▴ 890 • written 6.7 years ago by • 0
4
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2
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2.3k
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Imputed dosages in GENESIS
genesis gwastools seqarray
7.1 years ago • updated 6.8 years ago Stephanie M. Gogarten ▴ 890
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1
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1.4k
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Efficient resampling in GENESIS or another Bioconductor GWAS package to obtain empirical p-values?
GENESIS GWAS resampling resample statistics
6.8 years ago naglemi ▴ 10
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1
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1.4k
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Difference between AssocTestMM (GENESIS) and EMMAX? Why results are different?
GENESIS GWAS AssocTestMM
updated 7.0 years ago by ▴ 70 • written 7.0 years ago by ▴ 10
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1
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1.4k
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GENESIS pcrelate() to load gds file and continue where the function broke
genesis pcrrelate gds
updated 7.0 years ago by ▴ 890 • written 7.0 years ago by • 0
0
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1
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1.3k
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Using previously calculated PCs in GENESIS
genesis snprelate
7.1 years ago Stephanie M. Gogarten ▴ 890
0
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1
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1.4k
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Unable to build GDS with more than 255 scaffolds?
GENESIS GWAS GDS
updated 7.2 years ago by ▴ 30 • written 7.2 years ago by ▴ 10
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1
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1.1k
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selecting SNPs and samples in GENESIS
genesis
7.3 years ago Stephanie M. Gogarten ▴ 890
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3
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1.7k
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GENESIS: assocTestMM error for lack of sex chromosome info (not relevant for this species)
GENESIS assoctestmm GWAS
updated 7.3 years ago by ▴ 70 • written 7.3 years ago by ▴ 10
3
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4
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2.0k
views
Why is assocTestMM running with only a fraction of SNPs in genotype data?
LMM GWAS GENESIS assocTestMM
updated 7.3 years ago by ▴ 70 • written 7.3 years ago by ▴ 10
2
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8
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2.3k
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GENESIS: PCAIR: Error in acc(object, NL[cnode]) : unmatched node provided
genesis pcair
7.5 years ago GENOMIC_region • 0
0
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7
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2.5k
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GENESIS: king2mat: subscript out of bounds
genesis
7.5 years ago Stephanie M. Gogarten ▴ 890
40 results • Page 1 of 1
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Answer: Post translational modifications and phosphoproteomics in limpa? by Gordon Smyth 53k
Yes, we use limpa for PTMs ourselves. I assume your data is preprocessed so that each row corresponds to a PTM. You replace dpcQuant() with…
Comment: What R/Bioconductor tools would you recommend for the analysis of sncRNA, specif by Matthew Thornton ▴ 380
WOW! Thank you so much for the information. I will do this.
Comment: "Watched Tags" are being erased rather than updated by RalphSavage99 • 0
Thanks for sharing https://github.com/Bioconductor/support.bioconductor.org/issues/112
Answer: Add additional maintainer for MOFA2 by shepherl 4.2k
These requests are best on the bioc-devel @ r-project.org or a request to maintainer @ bioconductor.org -- We would ideally need the curre…
Answer: After running samtools, the featureCounts command crashed. by Kevin Blighe ★ 4.0k
Hi Rui Tang, The "buffer overflow detected" error in featureCounts usually stems from a corrupted or malformed GTF file, often due to tr…
Votes
Answer: What R/Bioconductor tools would you recommend for the analysis of sncRNA, specif
Using edgeR or DESeq2 to analyze allele-specific expression?
Answer: DESeq2 design for haplotype MPRA
Answer: Failure to download resources (MeSHDb) from AnnotationHub
Answer: Failure to download resources (MeSHDb) from AnnotationHub
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