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| author | Pjotr Prins | 2024-09-13 17:00:13 +0200 |
|---|---|---|
| committer | Pjotr Prins | 2024-09-13 17:00:19 +0200 |
| commit | 1cbfd8995265251683078d5b911072321072519a (patch) | |
| tree | 6d45eeda9be12b5e4ada883818f14d35eacd36c4 | |
| parent | 5d206e5a6acb612705395198d7e591fd5ae0fd07 (diff) | |
| download | gn-gemtext-1cbfd8995265251683078d5b911072321072519a.tar.gz | |
GEMMA permutations continued
| -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 |