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weizhouUMICH
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SAIGE
GNU Lesser General Public License v3.0
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Step 1 with sparse GRM gets stuck on "use sparse kinship to fit the model"
#447
alix-lacoste
closed
3 months ago
1
Pre-computed group files for UKB WES
#446
aanighoro
opened
5 months ago
0
The appropriate sample size for continuous and binary traits analysis in SAIGE-GENE+
#445
jxcao98
opened
7 months ago
0
Error running Step 1 on UKBB dataset.
#444
nanjalaruth
opened
8 months ago
0
Chromosome coding UKBB
#443
nandobonf
opened
9 months ago
0
R CMD INSTALL SAIGE
#442
yang285
opened
9 months ago
0
Error in mainRegionInCPP
#441
willow9505
opened
10 months ago
0
Trying to get LOCO=True to work
#440
Ankeet3
opened
11 months ago
0
Step1, sorting of sample ids
#439
Ankeet3
opened
11 months ago
0
createSparseGRM script (step0) doesn’t work
#438
omrak
opened
11 months ago
0
How do you create the SparseSigmafile?
#437
Ruedog
opened
1 year ago
0
Should this SAIGE be closed since you have a new SAIGE page?
#436
StripelessWatermelon
opened
1 year ago
0
possible issue with categorical variables used as covariates?
#435
brettva
opened
1 year ago
0
createSparseGRM error
#434
BIjoy92
opened
1 year ago
0
samples in geno file do not have phenotypes
#433
nm15336
closed
1 year ago
0
Can dominant model be used in single variant test?
#432
koko-mo-127
opened
1 year ago
0
Can't install
#431
Welz2
opened
1 year ago
0
Error at step2 on chrX
#430
eightYao2
opened
1 year ago
0
Error in getopt(spec = spec, opt = args) : long flag "bedFile" is invalid
#429
jingydz
opened
1 year ago
4
SAIGE-GENE+ install
#428
jingydz
closed
1 year ago
3
Error creating sparseGRM using 200k WES
#427
ajlee21
opened
1 year ago
0
floating point exception raised during step2 SPAtests
#426
mstapylton
opened
1 year ago
0
Using SAIGE on correlated phenotypic data
#425
AudeIkuzwe04
opened
1 year ago
0
Why are some parameters invalid when fitting the step1 model of set-based test?
#424
xuqian-007
closed
1 year ago
0
Empty Step 1 SAIGE files
#423
AudeIkuzwe04
opened
1 year ago
0
Error in if (pval != 0 && pval.noadj/pval > 10^3)
#422
ilovemr
opened
1 year ago
1
heterogeneity of effect
#421
psychrb
opened
1 year ago
0
Running SAIGE with small sample
#420
kbsssu
opened
1 year ago
0
SAIGE install via Conda configuration failure (failed to build statgen/savvy)
#419
krishnaxamin
opened
1 year ago
2
Error Message: Error in setSAIGEobjInCPP(t_XVX = obj.model$obj.noK$XVX, t_XXVX_inv = obj.model$obj.noK$XXVX_inv
#418
Jeffleecy
opened
1 year ago
2
Interpreting the BETA output from SAIGE
#417
adanordeidet
opened
1 year ago
0
Download failed with error 503 for: //github.com/statgen/savvy/archive/v2.1.0.tar.gz
#416
7JVST
closed
1 year ago
0
Failure with r-saige package installation from Bioconda
#415
zcebeci
opened
1 year ago
0
是否可以在windowns系统运行?
#414
sheshen22
opened
1 year ago
0
SAIGE error step2
#413
LMoolhuijsen
opened
1 year ago
1
Download failed with error 404 for: //zlib.net/zlib-1.2.11.tar.gz
#412
psammarco
closed
2 years ago
1
Error message: "ERROR! The first variance component parameter estimate is 0"
#411
dkimsjch
opened
2 years ago
6
No markers found --SPAGMMATtest
#410
medinacarolina
opened
2 years ago
0
p-values illogically small (10^-280) in conditional analysis
#409
mallorydownie
opened
2 years ago
3
Missing --qCovarColList flag from step1_fitNULLGLMM.R wrapper script?
#408
samuelejones
opened
2 years ago
2
SAIGE step2 sampleID error
#407
crystalorangeZR
opened
2 years ago
0
permutation test to phewas analysis to decrease the burden of multiple testing correction
#406
Shicheng-Guo
closed
2 years ago
1
Effect size
#405
mkierczak
closed
2 years ago
1
segfaults on newer SAIGE in Docker. Older versions still work.
#404
pettyalex
closed
2 years ago
1
problem/error with running conditional analysis
#403
ruthchia
closed
2 years ago
2
Warning: no sample level data available
#402
michelemarongiu79
closed
2 years ago
1
Issues with --useSparseGRMtoFitNULL=TRUE
#401
eugenegardner
closed
2 years ago
1
step2_SPAtests.R doesn't analyze SNPs that are expected to be analyzed
#400
gurinovich
closed
2 years ago
2
including rare variants in GRM decrease statistical power to identify novel targets?
#399
Shicheng-Guo
closed
2 years ago
1
numRandomMarkerforSparseKin and relatednessCutoff in GRM generation
#398
Shicheng-Guo
closed
2 years ago
1
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