Showing : GENESIS • reset
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215
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Conditional analysis
GENESIS
4 months ago SuperDad • 0
0
votes
1
reply
400
views
GENESIS: error in crossprod
GENESIS
8 months ago Stephanie M. Gogarten ▴ 870
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2
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663
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GENESIS: Can not use GdsGenotypeReader to read a gds file
GENESIS GWASTools GDSfile
updated 10 months ago by ▴ 870 • written 10 months ago by • 0
0
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2
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596
views
SKAT-O method using GENESIS, question about range iterator using SeqVarWindowIterator
GENESIS SeqVarTools
updated 11 months ago by ▴ 870 • written 11 months ago by • 0
1
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1
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706
views
HOW to FIX - PCAir excludes all my SNPs because there is no chromosome information
GENESIS autosome-only=FALSE? PCAir
updated 11 months ago by 67k • written 11 months ago by ▴ 10
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441
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How many ancestries to send in admixMap() when doing a two-way analysis?
GENESIS admixMap
12 months ago mailtoshivam13 • 0
2
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5
replies
1.0k
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assocTestSingle output with GxE
GENESIS
updated 15 months ago by ▴ 870 • written 16 months ago by • 0
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1
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556
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Reference categories for factors
assocTestSingle GENESIS
written 20 months ago by • 0
0
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2
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878
views
kinToMatrix creates an empty matrix (except for diagonal 0.5 values)
kingToMatrix GENESIS Plants
24 months ago Monica • 0
1
vote
2
replies
4.6k
views
Why are my p-values deflated (GWAS)?
gwas genesis p-value q-q-plot
updated 3.7 years ago by • 0 • written 4.9 years ago by • 0
0
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1
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998
views
Approximations to Est and Est.SE in GENESIS
GENESIS
3.8 years ago Stephanie M. Gogarten ▴ 870
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0
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798
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X chromosome analyses for males in GENESIS
GENESIS
3.9 years ago Stephanie M. Gogarten ▴ 870
0
votes
3
replies
1.6k
views
Alternate allele for GENESIS?
genesis effect allele association analysis
updated 4.2 years ago by ▴ 870 • written 4.2 years ago by • 0
0
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1
reply
916
views
using GENESIS R package with non-human species
genesis gwastools
4.2 years ago Stephanie M. Gogarten ▴ 870
0
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2
replies
1.1k
views
Association testing model in GENESIS
genesis
updated 4.3 years ago by ▴ 870 • written 4.3 years ago by • 0
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1
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1.4k
views
GENESIS multiple gds files
genesis gds SeqVarData
updated 4.3 years ago by ▴ 870 • written 4.4 years ago by • 0
0
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8
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1.8k
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Question: GENESIS: assocTestSingle() is not giving any output; guessing that it is arising from GenotypeBlockIterator()
Genesis
4.7 years ago alipka ▴ 10
2
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1
reply
799
views
Does GENESIS match scan IDs for genotype and phenotype data?
GENESIS
updated 4.7 years ago by ▴ 870 • written 4.7 years ago by ▴ 10
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0
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981
views
Normalisation of Data before loading in TMixClust
rna-seq tmixclust k-means clustering gene expression genesis
4.8 years ago astridite • 0
2
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1
reply
943
views
Why did the Wald test disappear from GENESIS?
genesis
4.9 years ago Stephanie M. Gogarten ▴ 870
1
vote
3
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1.5k
views
Error in fitNullMM from GENESIS package on highly-related samples
GENESIS
5.0 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 5.0 years ago by ▴ 870 • written 5.0 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 5.0 years ago by ▴ 870 • written 5.0 years ago by ▴ 10
2
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4
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1.3k
views
Sporadic missingness with admixmmap
genesis admixmap
updated 5.1 years ago by ▴ 870 • written 5.1 years ago by • 0
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3
replies
2.0k
views
Can't install Genesis
Genesis Installation
updated 5.2 years ago by ★ 6.5k • written 5.2 years ago by ▴ 10
0
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3
replies
1.4k
views
GENESIS: ascertainment in GWAS
genesis fitnullmodel gwas ascertainment
updated 5.2 years ago by ▴ 70 • written 5.2 years ago by • 0
6
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11
replies
3.1k
views
Genesis: doubts with admixMAPMM
genesis admixmap
updated 5.5 years ago by ▴ 870 • written 5.5 years ago by • 0
0
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1
reply
1.0k
views
betas for binary outcome
genesis
5.5 years ago Stephanie M. Gogarten ▴ 870
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13
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2.6k
views
GENESIS pcrelate() write gds file doesn't work
genesis pcrelate gds
updated 5.6 years ago by ▴ 870 • written 5.6 years ago by • 0
4
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2
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2.0k
views
Imputed dosages in GENESIS
genesis gwastools seqarray
6.0 years ago • updated 5.7 years ago Stephanie M. Gogarten ▴ 870
0
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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
5.7 years ago naglemi ▴ 10
1
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1
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1.1k
views
Difference between AssocTestMM (GENESIS) and EMMAX? Why results are different?
GENESIS GWAS AssocTestMM
updated 5.9 years ago by ▴ 70 • written 5.9 years ago by ▴ 10
1
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1
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1.1k
views
GENESIS pcrelate() to load gds file and continue where the function broke
genesis pcrrelate gds
updated 6.0 years ago by ▴ 870 • written 6.0 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
6.1 years ago Stephanie M. Gogarten ▴ 870
0
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1
reply
1.2k
views
Unable to build GDS with more than 255 scaffolds?
GENESIS GWAS GDS
updated 6.1 years ago by ▴ 30 • written 6.1 years ago by ▴ 10
0
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1
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887
views
selecting SNPs and samples in GENESIS
genesis
6.2 years ago Stephanie M. Gogarten ▴ 870
0
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3
replies
1.4k
views
GENESIS: assocTestMM error for lack of sex chromosome info (not relevant for this species)
GENESIS assoctestmm GWAS
updated 6.2 years ago by ▴ 70 • written 6.2 years ago by ▴ 10
3
votes
4
replies
1.7k
views
Why is assocTestMM running with only a fraction of SNPs in genotype data?
LMM GWAS GENESIS assocTestMM
updated 6.2 years ago by ▴ 70 • written 6.2 years ago by ▴ 10
2
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8
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1.9k
views
GENESIS: PCAIR: Error in acc(object, NL[cnode]) : unmatched node provided
genesis pcair
6.4 years ago GENOMIC_region • 0
0
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7
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2.0k
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GENESIS: king2mat: subscript out of bounds
genesis
6.4 years ago Stephanie M. Gogarten ▴ 870
40 results • Page 1 of 1
Recent ...
Replies
Comment: How to reverse complement some elements of a DNAStringSet by Christine Jones • 0
Fantastic, thank you
Comment: When running contrasts, does it use normalized read counts? by Katherine • 0
Ok, so the comment I was given where they said DeSeq2 should be with normalized counts is incorrect. the ```normalized_counts``` variable …
Answer: How to reverse complement some elements of a DNAStringSet by James W. MacDonald 67k
You should always try the vectorized method first, rather than looping. ``` > myFasta[myFasta_rc] <- reverseComplement(myFasta[myFasta_…
Answer: When running contrasts, does it use normalized read counts? by James W. MacDonald 67k
A contrast is a comparison of two or more coefficients. When you run `nbiomWaldTest` you are fitting the GLM and estimating coefficients. T…
Comment: Too much data for Diffbind by Ou, Jianhong ★ 1.3k
Just in case if somebody still want to apply summits greater than 0 and got the same error, you can filter out the peaks with start positio…
Votes
Comment: featureCounts fails to load annotation file
Answer: How to reverse complement some elements of a DNAStringSet
Answer: KEGGgraph result difference
Answer: What should be the normalization protocol for RNA seq data for WGCNA?
What should be the normalization protocol for RNA seq data for WGCNA?
Awards • All
Scholar to James W. MacDonald 67k
Popular Question to shepherl 4.0k
Scholar to Gordon Smyth 51k
Popular Question to bioinformaticssrm2011 • 0
Popular Question to sukeshinik5 ▴ 20
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