genetics-statistics GEMMA issues

genetics-statistics / GEMMA

Genome-wide Efficient Mixed Model Association

https://github.com/genetics-statistics/GEMMA

GNU General Public License v3.0

313 stars 122 forks source link

issues

Newest

Newest Most commented Recently updated Oldest Least commented Least recently updated

##ERROR: FAILED: Parsing input file 'mikk_small_hapVariants_updated_noheaders.csv' failed in function ReadFile_geno in src/gemma_io.cpp at line 744, for GEMMA 0.98.5 (2021-08-25) by Xiang Zhou, Pjotr Prins and team (C) 2012-2021

#282 fetche-lab opened 1 month ago
0
BIMBAM format (preferred)

#281 Sh1ne111 opened 3 months ago
0
Identical P-Values at end of run

#280 jeremysutherland opened 3 months ago
0
ERROR: Enforce failed for Problem reading FAM file (phenotypes do not match geno file) in src/gemma_io.cpp at line 600 in ReadFile_fam GEMMA 0.98.3 (2020-11-28) by Xiang Zhou and team (C) 2012-2020

#279 liuye2024 opened 6 months ago
0
The problem of filtering snp parameters

#278 hhd1008611 opened 6 months ago
0
Why the diagonal of relatedness matrix is not equal to 1 or a constant value?

#277 xiekunwhy opened 1 year ago
0
WARNING: Brent did not converge

#276 MWQ1224 opened 1 year ago
0
GSL ERROR: function value is not finite in brent.c at line 58 errno 9

#275 zhoufc213 opened 1 year ago
0
gsl: newton.c:88: ERROR: function value is not finite 3.08%

#274 jenny315 opened 1 year ago
0
Got a nan in the p-value results

#273 voichek opened 1 year ago
1
gemma-wrapper:279:in `<main>': Expected GEMMA -a genotype file switch (RuntimeError)

#272 KizBaolin opened 1 year ago
0
Pve is .999

#271 aguilar-gomez opened 1 year ago
0
Categorical covariates

#270 AlexandreHUBERT17 opened 1 year ago
0
Modified files for strain-specific residual variance option

#269 jb621-star opened 1 year ago
0
Residual Variance additions to mvlmm.cpp

#268 jb621-star closed 1 year ago
0
The input files includes 26 linkage groups but the output files only includes 22 linkage group

#267 yingxins opened 1 year ago
0
very low number of analyzed SNPs/var

#266 xbarvazx opened 1 year ago
0
Gemma run-time for Estimate Relatedness Matrix calculation

#265 alviitayyaba opened 2 years ago
0
basic usage doesn't work

#264 sql647 closed 2 years ago
0
long haplotype as population structure

#263 amsamani opened 2 years ago
0
Enforce failed for number of analyzed individuals equals 0. in src/param.cpp at line 2073 in ProcessCvtPhen

#262 zeroLB opened 2 years ago
2
Parsing input file '' failed in function AnalyzeBimbamGXE

#261 MaxiEstravis opened 2 years ago
0
Issue with GEMMA-Wrapper

#260 vinod1981 opened 2 years ago
1
FAILED error

#259 SNgalaxy opened 2 years ago
1
Errors when running GEMMA in an SoS step but ok in command line

#258 zhangbs92 opened 2 years ago
1
Phenotype file format for eQTL analysis

#257 SNgalaxy opened 2 years ago
0
Longitudinal Phenotype data

#256 ryshi06 opened 2 years ago
2
-lmm 9 option leads to bug in mvlmm model

#255 diogro opened 2 years ago
1
All snp have missing genotype for all individuals and will be ignored error

#254 kkamii opened 2 years ago
2
The gemma model choose problem

#253 K-zhangfengwei closed 3 years ago
1
GEMMA ERROR

#252 sekhwal opened 3 years ago
0
How to find Significant SNPs from the results of GEMMA

#251 sekhwal opened 3 years ago
0
compute fix effect

#250 xixifa opened 3 years ago
0
GSL ERROR: matrix is singular in lu.c at line 147 errno 1

#249 AgatheMaupetit opened 3 years ago
0
Should I use the "beta" estimates as the allelic effect size?

#248 DuttaAnik opened 3 years ago
0
Test failures for 0.98.4 on CentOS 7

#247 verdurin closed 2 years ago
1
Suggestion: link to R's gemma2?

#246 richelbilderbeek closed 3 years ago
5
GEMMA output error

#245 sekhwal closed 3 years ago
0
Beta for meta-analysis from MVLMM GEMMA output

#244 som-soremekun opened 3 years ago
0
Multivariate GEMMA hangs forever

#243 biona001 opened 3 years ago
6
Debian bug fails unit test

#242 pjotrp closed 2 years ago
2
LMM GXE bimbam read problem

#241 tplinderoth opened 3 years ago
0
Major allelle influences additive effect sign

#240 pjotrp opened 3 years ago
0
Error in `gemma': free(): invalid pointer: 0x00007fd0e37cbe7a

#239 clsgithubusr closed 3 years ago
2
Correct for X chromosome

#238 pjotrp opened 3 years ago
0
LMM output missing something?

#237 pjotrp closed 3 years ago
5
Difficulties in understanding mvLMM output

#236 shafiqnoa closed 3 years ago
1
Additive effect

#235 pjotrp opened 3 years ago
0
Allow and describe options for disabling filters

#234 pjotrp opened 3 years ago
6
Fix Travis CI

#233 pjotrp closed 3 years ago
2