From ad2bb5b65f2e3c5679b5d17de3f9b4050577f996 Mon Sep 17 00:00:00 2001 From: Arun Isaac Date: Tue, 19 Apr 2022 22:08:35 +0530 Subject: Add gmi extension to gemma effect size issue. Add title. --- issues/Effect size for GEMMA is a MUST | 8 -------- issues/effect-size-for-gemma-is-a-must.gmi | 10 ++++++++++ 2 files changed, 10 insertions(+), 8 deletions(-) delete mode 100644 issues/Effect size for GEMMA is a MUST create mode 100644 issues/effect-size-for-gemma-is-a-must.gmi diff --git a/issues/Effect size for GEMMA is a MUST b/issues/Effect size for GEMMA is a MUST deleted file mode 100644 index 973e21a..0000000 --- a/issues/Effect size for GEMMA is a MUST +++ /dev/null @@ -1,8 +0,0 @@ -To: @Zach, @Pjotr -From: robwwilliams -Regarding: Getting a readout of effect size and polarity of effect from GEMMA -Request Type: New feature for GEMMA, User requires these data - -Main Message: Let's Just Do It. Can be done as a kludge. Just plot the beta of the regression equation of the SNP status (ususally two or three states codes as 0, 1, 2 or -1,0, +1) against the phenotype. -The slope is roughly the effect size. This is good enough for most users. The only got-you is slight inflation of due to kinship structure and the Beavis effect when the sample size is low. -QUESTION—can I upload an image from Amelie Baud's talk on effect size? diff --git a/issues/effect-size-for-gemma-is-a-must.gmi b/issues/effect-size-for-gemma-is-a-must.gmi new file mode 100644 index 0000000..137e96e --- /dev/null +++ b/issues/effect-size-for-gemma-is-a-must.gmi @@ -0,0 +1,10 @@ +# Effect size for GEMMA is a MUST + +To: @Zach, @Pjotr +From: robwwilliams +Regarding: Getting a readout of effect size and polarity of effect from GEMMA +Request Type: New feature for GEMMA, User requires these data + +Main Message: Let's Just Do It. Can be done as a kludge. Just plot the beta of the regression equation of the SNP status (ususally two or three states codes as 0, 1, 2 or -1,0, +1) against the phenotype. +The slope is roughly the effect size. This is good enough for most users. The only got-you is slight inflation of due to kinship structure and the Beavis effect when the sample size is low. +QUESTION—can I upload an image from Amelie Baud's talk on effect size? -- cgit v1.2.3