when I am trying to run FaSTLMM v2.07 on Unbuntu system with command:
fastlmmc -snpPairs -file cleanF2deChr0 -fileSim cleanF2deChr0 -extractSim foodfrequency.snps.txt -pheno test_phe.txt -p...
Id #21573 | Release:
| Updated: Nov 21, 2014 at 5:35 PM by heckerma | Created: Nov 20, 2014 at 9:02 AM by fengzhang
I run feature_selection_cv.py for UNIX and I've got only the _mse.txt file. The other files, especially the most significant - _report.txt and _snps.cnv - are missing. The Log reports a weal...
Id #21262 | Release:
| Updated: Aug 28, 2014 at 7:07 AM by PDubreuil | Created: Aug 28, 2014 at 7:07 AM by PDubreuil
I have a question concerning the re-use of the decomposition object.
My dataset contains 22.500 phenotypes and 60.000 SNPs for 200 samples. First I compute the spectral decomposition objec...
Id #21195 | Release:
| Updated: Aug 1, 2014 at 8:43 AM by fkreuchw | Created: Jul 31, 2014 at 2:43 PM by fkreuchw
Seems like issue 17541 still isn't completly resolved in version 1.09 for Windows.
I use this command to read in a created sim-file:
fastlmmc -bfile data.fastlmm -pheno data.pheno -sim data.sim
Id #18361 | Release:
| Updated: Nov 25, 2013 at 6:15 AM by bobd00 | Created: Jul 13, 2012 at 10:06 AM by cbss
it would be great to have the odds ratios with 95%-confidence intervals corresponding to the p-values in the FaSTLMM output.
Id #18098 | Release:
| Updated: Feb 13, 2013 at 10:40 PM by costin_leu | Created: May 21, 2012 at 1:48 PM by costin_leu
Can we also chat about how the random numbers are being generated sometime.
I saw rand() in the codebase and that kinda of scared me if we are trying to get statistically uncorrelated results at 1...
Id #17987 | Release:
| Updated: Feb 13, 2013 at 10:40 PM by bobd00 | Created: May 4, 2012 at 4:15 PM by bobd00
When there is a bug in my data files and 0 individuals remain after intersection, I don’t get an error about that, but instead end up getting a downstream error, a few minutes later, after being to...
Id #17876 | Release:
| Updated: Feb 13, 2013 at 10:40 PM by bobd00 | Created: Apr 17, 2012 at 11:01 PM by bobd00
I am processing dosage data of 7.8 mio imputed SNPs.
Working with the Software version 1.05 i was getting this error message:
Fatal Error : std=.-nan has illegal value for SNPs[:]
Id #17677 | Release:
| Updated: Feb 13, 2013 at 10:40 PM by costin_leu | Created: Mar 22, 2012 at 2:54 PM by costin_leu
// obsolete? remove in future since we only support INDIVIDUAL_ONLY
INDIVIDUAL_ID_TYPE individualIdType = INDIVIDUALID_ONLY;
Id #17612 | Release:
| Updated: Feb 13, 2013 at 10:40 PM by bobd00 | Created: Mar 15, 2012 at 6:29 PM by bobd00
I experienced the problem, when I saved a phenotype file to tab separated txt format from MS Excel on a Mac and tried running fastlmmc on Linux using that file.
Mac OS's prior to OS X used a sing...
Id #17611 | Release:
| Updated: Feb 13, 2013 at 10:40 PM by bobd00 | Created: Mar 15, 2012 at 6:24 PM by bobd00