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GENESIS
GENetic EStimation and Inference in Structured samples (GENESIS): Statistical methods for analyzing genetic data from samples with population structure and/or relatedness
https://bioconductor.org/packages/GENESIS
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Error in get(name, envir = asNamespace(pkg), inherits = FALSE) : object 'saddle' not found
#114
ruuhsu
closed
1 month ago
3
Available rare variant aggregate association tests
#113
CristianRiccio
closed
1 month ago
1
Filter extremely small p-values by setting them to Machine$double.xmin
#112
amstilp
closed
5 months ago
0
Add a helper function to calculate and filter pchisq values
#111
amstilp
closed
5 months ago
1
Filter extreme p-values using `.Machine$double.xmin`
#110
amstilp
opened
6 months ago
1
Cholesky factorization failed
#109
wangfan860
opened
6 months ago
1
pcrelate: error with rbindlist()
#108
AmandaHWChong
opened
7 months ago
1
Issue: Running PCAir on 140K individuals
#107
AmandaHWChong
closed
7 months ago
1
Issue with PCAir - Segmentation fault (core dumped)
#106
AmandaHWChong
closed
8 months ago
1
Error using assocTestAggregate
#105
pjuge
opened
9 months ago
1
HOW to FIX - PCAir excludes all my SNPs because there is no chromosome information
#104
GabryS3
closed
10 months ago
1
Conditional analysis
#103
angelosarmen
closed
10 months ago
1
High Memory Consumption with Large Dataset in PC-Relate
#102
ecyeh
opened
1 year ago
1
Error when running the pcrelate function
#101
AmandaHWChong
closed
1 year ago
3
ERROR:unused arguments (two.stage = TRUE, norm.option = "all", rescale = "residSD")
#100
DamienTan
closed
1 year ago
2
analysis pipeline for chromosome X
#99
candicecjj
closed
1 year ago
1
pcrelate REDUCE error while calculating individual AF betas
#98
BEFH
closed
1 year ago
8
add check in varCompCI that family is gaussian
#97
smgogarten
opened
2 years ago
0
Estimate PVE
#96
MARCPUCV
closed
1 year ago
1
correctK2() drops samples under specific conditions
#95
broomej
opened
2 years ago
1
enable returning the covariance matrix for GxE tests
#94
mconomos
opened
2 years ago
1
Add burden test values to SMMAT output
#93
amstilp
closed
2 years ago
2
Error in seqVCF2GDS(vcf.files, gds.file, verbose = FALSE)
#92
Bulouere
closed
2 years ago
1
fitNullModel doesn't converge when provided a list of matrices with more than 1 matrix
#91
tamartsi
opened
2 years ago
3
add fastSMMAT option and document
#90
mconomos
closed
2 years ago
1
bug fix for pcrelate with multiple cores
#89
smgogarten
closed
2 years ago
0
pcrelateToMatrix slow on 50k samples
#88
byoo
closed
1 year ago
10
Error in assocTestSingle() results when covariate is confounded with SNP genotype.
#87
rmsegnitz
opened
2 years ago
6
`fitted.values` in non-mixed null models are not what we expect
#86
amstilp
opened
2 years ago
0
Fix bug with SPA p-values for glm models
#85
amstilp
closed
2 years ago
2
SPA association tests are incorrect for non-mixed models
#84
amstilp
closed
2 years ago
1
bug fix: makeSparseMatrix handles numeric sample IDs
#83
smgogarten
closed
2 years ago
0
errors trying to use makeSparseMatrix
#82
earosenthal
closed
2 years ago
5
replace travis build with github actions
#81
smgogarten
closed
2 years ago
0
Adding functions to perform meta-analysis
#80
marcora
opened
2 years ago
2
Confusing error message in `assocTestSingle` when samples in null model are not in GDS file
#79
amstilp
closed
2 years ago
0
Subset covariance matrix to samples in sample.id if specified
#78
amstilp
closed
2 years ago
4
Error in assocTestSingle with Score.SPA test
#77
ZeyuanSong
closed
2 years ago
3
functions for meta analysis
#76
mconomos
opened
2 years ago
0
recessive and dominant coding
#75
smgogarten
closed
3 years ago
2
fitnullmodel error for matrix with negatives
#74
Reavyr
closed
2 years ago
3
Outdated pcair() call in vignette
#73
pamelarussell
closed
3 years ago
2
Parallel subfn
#72
smgogarten
closed
3 years ago
0
Parallel
#71
smgogarten
closed
3 years ago
3
pcrelate issue for large sample size
#70
GraceSheng
closed
3 years ago
4
assocTestSingle exhausts iterators
#69
kaskarn
closed
3 years ago
1
meanImpute calculation is split into blocks for large matrices
#68
smgogarten
closed
3 years ago
1
Generate Dense Kinship matrix
#67
nkurniansyah
closed
3 years ago
1
Error in if (any(i < 0L)) { : missing value where TRUE/FALSE needed
#66
vkp3
closed
3 years ago
7
updated code for recessive coding to test in association tests
#65
mchughc
closed
3 years ago
1
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