diff options
| -rw-r--r-- | topics/lmms/gemma/permutations.gmi | 3 |
1 files changed, 1 insertions, 2 deletions
diff --git a/topics/lmms/gemma/permutations.gmi b/topics/lmms/gemma/permutations.gmi index e1beaea..5a5e356 100644 --- a/topics/lmms/gemma/permutations.gmi +++ b/topics/lmms/gemma/permutations.gmi @@ -442,8 +442,7 @@ and, of course, as this reduced file is generated it not available yet. That was ./bin/gemma-wrapper:230:in `block in <main>': Do not use the GEMMA -p switch with gemma-wrapper if you are using JSON phenotypes! ``` -Hmm. This is a bit harder. The call to GWAS takes a kinship matrix and it gets reduced with every permutation. That is probably OK because it runs quickly, but I'll need to remove the -p switch... TBC - +Hmm. This is a bit harder. The call to GWAS takes a kinship matrix and it gets reduced with every permutation. That is probably OK because it runs quickly, but I'll need to remove the -p switch... OK. Done that and permutations are running in a second for 28 BXD! ## Dealing with epoch |