From afaec6e5be2119ebe9098fbc42c9f4e6cd06bfcd Mon Sep 17 00:00:00 2001 From: Stefano Mangiola Date: Tue, 27 Aug 2024 19:56:55 +0930 Subject: [PATCH 1/3] add message --- R/methods.R | 2 ++ 1 file changed, 2 insertions(+) diff --git a/R/methods.R b/R/methods.R index fe41efb..d4d80e0 100644 --- a/R/methods.R +++ b/R/methods.R @@ -438,6 +438,8 @@ sccomp_estimate.data.frame = function(.data, pass_fit = pass_fit ) + message("sccomp says: to do hypothesis testing run `sccomp_test()`, the `test_composition_above_logit_fold_change` = 0.1 equates to a change of ~10%") + res |> # Track input parameters From 87ae47c3a92079bacc3f09d0d1d0f182694c607d Mon Sep 17 00:00:00 2001 From: Stefano Mangiola Date: Tue, 27 Aug 2024 19:56:55 +0930 Subject: [PATCH 2/3] add message --- R/methods.R | 2 ++ 1 file changed, 2 insertions(+) diff --git a/R/methods.R b/R/methods.R index 054ab00..a03b07a 100644 --- a/R/methods.R +++ b/R/methods.R @@ -438,6 +438,8 @@ sccomp_estimate.data.frame = function(.data, pass_fit = pass_fit ) + message("sccomp says: to do hypothesis testing run `sccomp_test()`, the `test_composition_above_logit_fold_change` = 0.1 equates to a change of ~10%") + res |> # Track input parameters From 8f54a93ec1cd32409e72bf6c1ebe8db1941ab5b7 Mon Sep 17 00:00:00 2001 From: Stefano Mangiola Date: Tue, 27 Aug 2024 20:33:52 +0930 Subject: [PATCH 3/3] add message --- R/methods.R | 5 ++++- 1 file changed, 4 insertions(+), 1 deletion(-) diff --git a/R/methods.R b/R/methods.R index a03b07a..0009c1e 100644 --- a/R/methods.R +++ b/R/methods.R @@ -438,7 +438,10 @@ sccomp_estimate.data.frame = function(.data, pass_fit = pass_fit ) - message("sccomp says: to do hypothesis testing run `sccomp_test()`, the `test_composition_above_logit_fold_change` = 0.1 equates to a change of ~10%") + message("sccomp says: to do hypothesis testing run `sccomp_test()`, + the `test_composition_above_logit_fold_change` = 0.1 equates to a change of ~10%, and + 0.7 equates to ~100% increase, if the baseline is ~0.1 proportion. + Use `sccomp_proportional_fold_change` to convert c_effect (linear) to proportion difference (non linear).") res |>