Showing : gwas • reset
0
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1.2k
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GENESIS: ascertainment in GWAS
genesis fitnullmodel gwas ascertainment
updated 4.7 years ago by ▴ 70 • written 4.7 years ago by • 0
0
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1
reply
962
views
Unable to build GDS with more than 255 scaffolds?
GENESIS GWAS GDS
updated 5.6 years ago by ▴ 30 • written 5.6 years ago by ▴ 10
1
vote
1
reply
915
views
Difference between AssocTestMM (GENESIS) and EMMAX? Why results are different?
GENESIS GWAS AssocTestMM
updated 5.4 years ago by ▴ 70 • written 5.4 years ago by ▴ 10
1
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2
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4.0k
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Why are my p-values deflated (GWAS)?
gwas genesis p-value q-q-plot
updated 3.2 years ago by • 0 • written 4.4 years ago by • 0
3
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4
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1.5k
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Why is assocTestMM running with only a fraction of SNPs in genotype data?
LMM GWAS GENESIS assocTestMM
updated 5.7 years ago by ▴ 70 • written 5.7 years ago by ▴ 10
0
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4
replies
737
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Which software can prune 5 Million SNPs?
LinkageDisequilibrium SNP gwas GWASdata ldblock
13 months ago Weiqiong • 0
0
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3
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1.2k
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GENESIS: assocTestMM error for lack of sex chromosome info (not relevant for this species)
GENESIS assoctestmm GWAS
updated 5.7 years ago by ▴ 70 • written 5.7 years ago by ▴ 10
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893
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Job: Postdoc: BIOINFORMATICS FOR FUNCTIONAL GENOMICS AND POPULATION GENETICS OF CANCER
GWAS lung cancer functional genomics eQTL sequencing Job
4.0 years ago jiyeon.choi2 • 0
0
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1
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663
views
gwas power calculation for quantitative traits
power GWAS
written 2.7 years ago by • 0
0
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0
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686
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Job: Research Associate, computational/statistical genetics & genomics, MRC Biostatistics Unit, University of Cambridge
molecularQTL computationalbiology immunology GWAS biostatistics
2.1 years ago helene.ruffieux • 0
0
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0
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726
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Job: Postdoc position - Genetic epi/statistical genetics
GWAS cancer biomarkers PRS
22 months ago Sarah • 0
0
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0
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1.1k
views
News: gwascat package updated: new features in devel branch
GWAS genetic epidemiology SNP News
8.7 years ago Vincent J. Carey, Jr. 6.7k
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734
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Job: Research Associate, statistical genetics & genomics, MRC Biostatistics Unit, University of Cambridge
molecularQTL biostatistics computationalbiology GWAS
22 months ago helene.ruffieux • 0
2
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0
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1.4k
views
Job: Two year postdoc position at Trento, Laboratory of Neurogenomic Biomarkers, Italy
job GWAS genetics genomics neuro Job
7.8 years ago enridomenici ▴ 10
0
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0
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1.1k
views
Job: BIOINFORMATICIAN I at Brigham and Women's Hospital, Boston, MA, USA
rna-seq gwas R bioconductor Job
6.8 years ago IV ▴ 30
0
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1
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922
views
GWAS: access Imputation probabilities: snpStats
gwas snpstats GWAS Imputation snpStats
5.8 years ago GENOMIC_region • 0
0
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0
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864
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how to: enrichment (over representation) analysis of GWAS/QTL data distributed over a genome with GOSEQ
goseq enrichment GWAS
5.7 years ago zhu • 0
0
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1
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963
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Efficient resampling in GENESIS or another Bioconductor GWAS package to obtain empirical p-values?
GENESIS GWAS resampling resample statistics
5.2 years ago naglemi ▴ 10
0
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0
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731
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Which R package has a test for a gene by environment interaction using imputed data and a quantitative phenotype?
GWAS CGEN gxe
5.2 years ago pwjeffries • 0
19 results • Page 1 of 1
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Replies
Answer: Why p value inconsistent when using different number of pathway score? by ATpoint ★ 4.0k
Same answer as here: https://support.bioconductor.org/p/9157606/ Adding or removing data (samples, genes, pathways, observations...) chang…
Comment: The difference when using Limma compare between 3 conditions vs 2 conditions by Chris • 0
Thanks Robert!
Comment: The difference when using Limma compare between 3 conditions vs 2 conditions by Robert Castelo ★ 3.2k
Hi, your `c2` object storing all the gene sets is probably a `list` object, where element names are the names of the pathways given by MSig…
Comment: Differential peaks that were not identified in diffbind were identified in diseq by lonn • 0
I tried the default normalization and got similar results as above. Perhaps I need to try identifying the difference peak without using dif…
Answer: Cannabis and KEGGgraph by deeenes ▴ 30
Hello, I'm a developer of the `OmnipathR` package, and I wrote [a function][1] to access certain KEGG data: library(OmnipathR) cs…
Votes
Comment: The difference when using Limma compare between 3 conditions vs 2 conditions
Installing/switching between versions of R/Rstudio/Bioconductor on personal machine (Linux | Ubuntu)
A: Docker container with bioconductor and devtools
Answer: OrgDb for maize
Comment: significant difference of p-values with dream() after updating VariancePartition
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