susieR version 0.12.35 released on CRAN

Removes the L0Learn dependency since it was no longer available on CRAN.

susieR version 0.12.27 released on CRAN

v0.12.27

susieR version 0.12.27 released on CRAN.

susieR 0.12.16 released on CRAN (June 27, 2022)

v0.12.16

susieR version 0.12.16.

susieR 0.11.92 released on CRAN (November 12, 2021)

v0.11.92

susieR version 0.11.92

susieR 0.11.84 released on CRAN (November 10, 2021)

v0.11.84

susieR version 0.11.84

susieR release published on CRAN (June 2, 2021)

v0.11.33

susieR version 0.11.33

Version 0.9.0

This version has some interface changes and minor improvements:

• susie_bhat and susie_ss are now merged to susie_suff_stat
• Additional input check and preprocessing options are implemented to susie_rss
• Add a method simple to estimate_prior_method that simply compares specified prior variance with zero and set it to zero if the latter has higher loglikelihood.

Version 0.8.0

This version improves the sufficient statistics interface susie_ss and susie_bhat, and introduces a new model susie_rss for summary statistics version of SuSiE using RSS model. Specifically:

1. var_y is now replaced by yty in susie_ss
2. susie_z is now replaced by susie_rss using the new RSS model
3. Various checks for input covariance / correlation matrix of X, and for input summary statistics, to ensure they are in the space spanned by non-zero eigenvectors of covariance / correlation matrix of X
4. Add interface to access posterior quantities #84
5. Unify X data object for dense and sparse matrices

(Credits goes to @zouyuxin for 1-4 and @KaiqianZhang for 5)

Version 0.7.1

This release is a patch to 0.7.0 that performs filtering by default with susie_get_CS function for effects with estimated V=0.

Version 0.7.0

We have improved procedure to estimate prior variance and have set estimate_prior_effect = TRUE by default. Versions prior to 0.7.0 should give similar results if this option is explicitly specified; otherwise analysis using earlier version will likely produce different results from this version. It is suggested that users upgrade to this version, and add estimate_prior_effect = FALSE to susie() function call if it is desired to preserve previous behavior when the prior variance is fixed.

Credit to @KaiqianZhang who did most of the work and assessment to make it happen.