stephenslab flashr issues

stephenslab / flashr

R package for Empirical Bayes Factor Analysis.

https://stephenslab.github.io/flashr

BSD 3-Clause "New" or "Revised" License

49 stars 11 forks source link

issues

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Sparse input data

#102 ml3958 opened 3 years ago
3
Automatic scaling of the data?

#101 ml3958 closed 3 years ago
4
could not find `udv_si` function

#100 ml3958 closed 3 years ago
2
Objective occasionally decreases -- an example

#99 gaow opened 3 years ago
2
flash_backfit and flash_add_greedy with ebnm_pl

#98 malachycampbell closed 4 years ago
4
Possible improvement to softimpute initializations

#97 stephens999 opened 4 years ago
0
Use ebnm function directly (instead of wrapping)

#96 willwerscheid opened 5 years ago
0
flash_get_ldf() and flash_get_fitted_values() are not exported.

#95 dcgerard opened 5 years ago
2
Don't accept data frames for flash data object

#94 willwerscheid opened 5 years ago
1
Error on a toy example possible corner case

#93 gaow closed 5 years ago
2
deal with Kmax = 0

#92 willwerscheid opened 5 years ago
0
improve tests

#91 willwerscheid opened 5 years ago
0
Reduce memory footprint for large datasets

#90 willwerscheid opened 5 years ago
4
Implement sparsity output for ebnm_ash

#89 willwerscheid opened 5 years ago
0
Add option that allows sampler to sample both loadings and factors

#88 willwerscheid closed 5 years ago
1
Add nonnegative initialization functions

#87 willwerscheid opened 6 years ago
0
Suggestion for main interface

#86 willwerscheid opened 6 years ago
2
More efficient handling of tau matrix

#85 willwerscheid closed 6 years ago
1
Improved interface

#84 willwerscheid closed 6 years ago
1
see if we get speedup by not using full tau matrix

#83 willwerscheid opened 6 years ago
6
need better initialization of LL when adding fixed factors

#82 willwerscheid opened 6 years ago
0
add backfit option to add_fixed_factors?

#81 willwerscheid closed 6 years ago
1
remove seed parameter?

#80 willwerscheid closed 6 years ago
2
think about parameter order in main functions

#79 willwerscheid opened 6 years ago
0
Better data and var_type argument checking

#78 willwerscheid closed 6 years ago
1
add check to make sure data object and fit object are compatible

#77 willwerscheid closed 6 years ago
0
move var_type handling from update_precision to new fn

#76 willwerscheid closed 6 years ago
1
Re-factoring, improved verbose output, warmstart, handle LL and fixl

#75 willwerscheid closed 6 years ago
1
Improved verbose output; set verbose=TRUE by default; handle zero factors in sampler

#74 willwerscheid closed 6 years ago
0
Add simulation function

#73 willwerscheid opened 6 years ago
0
Additional verbose output?

#72 willwerscheid closed 6 years ago
1
add check to add_fixed_l

#71 willwerscheid closed 6 years ago
1
Small fixes

#70 willwerscheid closed 6 years ago
1
Improvements to sampling function

#69 willwerscheid closed 6 years ago
1
Plotting fixes

#68 willwerscheid closed 6 years ago
1
Add summary method for flash object

#67 willwerscheid closed 6 years ago
1
Fix build errors

#66 willwerscheid closed 6 years ago
1
Remove last factor added by flash_add_greedy if its zero

#65 willwerscheid closed 6 years ago
1
Propagate row and column names

#64 willwerscheid closed 6 years ago
1
Minor restructuring of flash object

#63 willwerscheid closed 6 years ago
1
Improvements to documentation and other minor enhancements to interface

#62 willwerscheid closed 6 years ago
1
Improvements to get functions

#61 willwerscheid closed 6 years ago
4
Clean up exports

#60 willwerscheid closed 6 years ago
2
better documentation needed for var_type

#59 willwerscheid closed 6 years ago
1
Set class = "flash" for flash fit objects

#58 willwerscheid closed 6 years ago
1
fix g when creating sampler

#57 willwerscheid closed 6 years ago
0
restructure flash fit object?

#56 willwerscheid closed 6 years ago
0
add summary method

#55 willwerscheid closed 6 years ago
1
Fix minor typos in README file

#54 willwerscheid closed 6 years ago
1
think about removing factor entirely if zero in flash_add_greedy

#53 willwerscheid closed 6 years ago
2