pcarbo varbvs issues - Githubissues

pcarbo / varbvs

Large-scale Bayesian variable selection for R and MATLAB.

http://pcarbo.github.io/varbvs

GNU General Public License v3.0

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issues

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Is it better to use PIP or Bayes factor for variable selection?

#43 garyzhubc opened 1 week ago
3
Scale invariance

#42 nlapier2 opened 5 months ago
3
Does the size of the PIP matters? Is it worth reporting if I get a bunch of small PIP values? 0.02 or so.

#41 garyzhubc opened 6 months ago
0
How to plot PIP in log scale?

#40 garyzhubc opened 6 months ago
0
Shall I put the entire chromosome in varbvs given that it's computationally feasible to do so?

#39 garyzhubc opened 6 months ago
0
How to set success rate \pi?

#38 garyzhubc closed 7 months ago
1
trouble plotting

#37 garyzhubc closed 8 months ago
1
Inconsistencies between simulated and calculated pip

#36 garyzhubc closed 8 months ago
0
How to sample from the posterior?

#35 garyzhubc opened 11 months ago
2
Do you recommend pruning SNPs that are in linkage disequilibrium before putting into varbvs?

#34 garyzhubc opened 3 years ago
3
Do you recommend including principal components as covariates to control for population stratification?

#33 garyzhubc closed 3 years ago
1
How to tune the model when it shows a lot of small probabilities around a region known to be highly relevant to the phenotype?

#32 garyzhubc closed 3 years ago
1
Is this an indication of the non-convergence of the algorithm?

#31 garyzhubc closed 3 years ago
5
Why varbvs doesn't accept datasets with missing genotype?

#30 garyzhubc closed 3 years ago
1
Can you support .bed or .bgen files?

#29 garyzhubc closed 3 years ago
9
Parallel execution of loop over grid of "logodds"

#28 fmorgante opened 3 years ago
0
Undefined function or variable 'fit'

#27 xiangzhu closed 5 years ago
1
Log-odds based on 10

#26 xiangzhu closed 5 years ago
2
Mex flag `-DMATLAB_MEX_FILE`

#25 xiangzhu closed 5 years ago
6
show inference for pi in print.summary.varbvs

#24 timflutre opened 6 years ago
4
keep same output for confint whether one or several variables are given

#23 timflutre closed 5 years ago
6
list top variables based on their PIP

#22 timflutre closed 6 years ago
2
question on assigning prior logodds to input data

#21 YSanchezAraujo closed 6 years ago
2
Z values- categorical covariates with multiple levels

#20 RohitThakur01 opened 6 years ago
1
Random Effect

#19 camult opened 6 years ago
1
allow to pass weights to varbvs()

#18 timflutre opened 6 years ago
13
Add "update.order" argument to varbvs function

#17 pcarbo closed 6 years ago
1
problems when X is not double precision

#16 stephens999 closed 6 years ago
6
An edge case with `varbvsmix`

#15 gaow closed 6 years ago
2
subroutine missing

#14 xiangzhu closed 7 years ago
4
Rcpp implementation for varbvsnormupdate.

#13 dcgerard closed 7 years ago
1
get problem of mexing the c file

#12 bruce803 opened 7 years ago
3
Update mvash branch.

#11 pcarbo closed 7 years ago
0
The two-stage fitting procedure is not available when ns == 1

#10 xiangzhu closed 8 years ago
1
Definitions of sa are different between varbvs 1.0 and 2.0

#9 xiangzhu closed 8 years ago
5
Inf is not allowed for options.maxiter

#8 xiangzhu closed 8 years ago
1
broken paper link in readme

#7 xiangzhu closed 8 years ago
1
error when running the mcmc method (adapted from example 1)

#6 jcrdubois opened 9 years ago
1
Check inputs for createsnps.m and createdata.m

#5 pcarbo closed 12 years ago
1
Explain why X is SINGLE.

#4 pcarbo closed 12 years ago
1
Econometrics toolbox by James LeSage

#3 pcarbo closed 12 years ago
1
Check for SINGLE matrix in .cpp files

#2 pcarbo closed 12 years ago
1
License

#1 pcarbo closed 12 years ago
1