issues
search
saigegit
/
SAIGE
Development for SAIGE and SAIGE-GENE(+)
GNU General Public License v3.0
66
stars
29
forks
source link
issues
Newest
Newest
Most commented
Recently updated
Oldest
Least commented
Least recently updated
Justification for 0.125 GRM sparsity threshold
#51
tom-a-bond
closed
1 year ago
2
About Pvalue
#50
SheaCheng2000
closed
1 year ago
4
Step2 error
#49
LMoolhuijsen
closed
1 year ago
1
update savvy version to v2.1.0
#48
pettyalex
closed
2 years ago
4
ERROR! The first variance component parameter estimate is 0
#47
mkierczak
closed
1 year ago
4
Firth SE
#46
bgorm
closed
2 years ago
3
options to analyze savfile and vcffile by region?
#45
brettva
closed
1 year ago
1
Installation in ubuntu 22.04
#44
jeantristanb
closed
2 years ago
1
Error in setVCFobjInCPP
#43
psnehal
opened
2 years ago
4
Update SAIGE_fitGLMM_fast.R
#42
raonyguimaraes
closed
2 years ago
1
method of conditional association analysis in SAIGE
#41
xingejun
closed
1 year ago
1
No markers found --SPAGMMATtest
#40
medinacarolina
opened
2 years ago
0
Strange imputationInfo scores
#39
bgorm
closed
2 years ago
6
the --vcfFileIndex option seems to be ignored
#38
pettyalex
closed
1 year ago
1
The conditional P-values for many snps are 0, and their conditional variance is not very small
#37
shengzheBian
opened
2 years ago
2
plinkfile and bgen file with dosage
#36
xingejun
closed
2 years ago
2
Error in SPAGMMATtest
#35
xingejun
closed
1 year ago
4
issue in step0 and the step2
#34
xingejun
closed
1 year ago
2
error with LOCO=TRUE
#33
xingejun
closed
1 year ago
2
Error in chromosome X
#32
xingejun
closed
1 year ago
6
Updated the steps to create a conda env (as current one's borked), updated the yml file and combined the SAIGE installation instructions into a shell script
#31
samuelejones
closed
2 years ago
0
Step2: Error in setVCFobjInCPP
#30
SheaCheng2000
opened
2 years ago
19
groupFile issue
#29
yonas-yuh
closed
2 years ago
2
Drop missing dosages
#28
kousathanas
closed
2 years ago
1
Chromosome X handling
#27
kousathanas
opened
2 years ago
2
Issue with chromosomes 1 through 9
#26
catrionakbarnes
closed
2 years ago
2
Inconsistent set-based p-values between runs
#25
pedrumstick
closed
2 years ago
2
Step2 conditional analysis with one variant
#24
diogomribeiro
opened
2 years ago
2
First variance component is 0. Error in analysing quantitative trait.
#23
mkierczak
closed
2 years ago
1
Single variant association test results from region based test
#22
tammy-dg
closed
1 year ago
2
Conditional analysis - step 2
#21
damichalek
closed
2 years ago
2
Is.SPA.converge missing?
#20
guidebortoli
closed
2 years ago
1
fix: Build inside of conda
#19
pettyalex
closed
2 years ago
1
Fix build in Conda: reorder includes to Rcpp* is after savvy
#18
pettyalex
closed
2 years ago
1
SAIGE build failure within conda: error: expected ')' before 'PRId64'
#17
pettyalex
closed
2 years ago
6
New dockerfile cleanup: Revert changes to DESCRIPTION
#16
pettyalex
closed
2 years ago
0
Update dockerfile: Ubuntu 20.04 with system R, OpenBLAS
#15
pettyalex
closed
2 years ago
2
Build failure on arm64: savvy cannot build / run on arm64
#14
pettyalex
closed
2 years ago
3
Step 2 - annotations not recognized upon reading new chunk of regions
#13
tammy-dg
closed
2 years ago
2
Step 2 - get_newPhi_scaleFactor error in SAIGE-GENE+ depending on annotations
#12
tammy-dg
closed
1 year ago
6
MACVec_forVarianceRatio
#11
LaporteF
closed
2 years ago
3
Step1 and --useSparseGRMtoFitNULL and --LOCO
#10
tammy-dg
closed
2 years ago
2
nThreads support for SAIGE step2
#9
ofrei
closed
2 years ago
2
Installation issue - package dependency issues
#8
catrionakbarnes
closed
2 years ago
2
Installation Issue
#7
LaporteF
closed
1 year ago
3
llapack linking error (refers to issue 118 in old repository)
#6
mverkerk
closed
2 years ago
2
Use M_PI from math.h instead of PI in src/CCT.cpp
#5
mverkerk
closed
2 years ago
1
Recessive model
#4
FrederikFilip
closed
1 year ago
2
SAIGE from source code. No MetaSKAT.
#3
FrederikFilip
closed
2 years ago
1
Sample File
#2
eugenegardner
closed
2 years ago
3
Previous
Next