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| author | Pjotr Prins | 2024-05-07 11:24:27 +0200 |
|---|---|---|
| committer | Pjotr Prins | 2024-05-07 11:24:27 +0200 |
| commit | a33b062cb2631064c9d5323ddc208933caf28624 (patch) | |
| tree | e5e98f9f2c14f72ccea4e499c0c0984ae64b0950 /issues/gemma | |
| parent | a7bf2095c48bb8cd8fead123849d7e64c85b5bfb (diff) | |
| download | gn-gemtext-a33b062cb2631064c9d5323ddc208933caf28624.tar.gz | |
Precompute
Diffstat (limited to 'issues/gemma')
| -rw-r--r-- | issues/gemma/lmm-precomputed-scores.gmi | 37 |
1 files changed, 8 insertions, 29 deletions
diff --git a/issues/gemma/lmm-precomputed-scores.gmi b/issues/gemma/lmm-precomputed-scores.gmi index 744d51a..8db9722 100644 --- a/issues/gemma/lmm-precomputed-scores.gmi +++ b/issues/gemma/lmm-precomputed-scores.gmi @@ -7,36 +7,15 @@ Here we will track introducing a new precomputation of scores for GN. Interestin * assigned: pjotrp * priority: high * type: bug, enhancement -* status: unclear +* status: ongoing * keywords: database, gemma, reaper -# Old storage - -The old reaper scores are in - -``` -MariaDB [db_webqtl]> select ProbeSetId,ProbeSetFreezeId,Locus,LRS,additive from ProbeSetXRef limit 10; -+------------+------------------+----------------+------------------+--------------------+ -| ProbeSetId | ProbeSetFreezeId | Locus | LRS | additive | -+------------+------------------+----------------+------------------+--------------------+ -| 1 | 1 | rs13480619 | 12.590069931048 | -0.28515625 | -| 2 | 1 | rs29535974 | 10.5970737900941 | -0.116783333333333 | -| 3 | 1 | rs49742109 | 6.0970532702754 | 0.112957489878542 | -| 4 | 1 | rsm10000002321 | 11.7748675511731 | -0.157113725490196 | -| 5 | 1 | rsm10000019445 | 10.9232633740162 | 0.114764705882353 | -| 6 | 1 | rsm10000017255 | 8.45741703245224 | -0.200034412955466 | -| 7 | 1 | rs4178505 | 7.46477918183565 | 0.104331983805668 | -| 8 | 1 | rsm10000144086 | 12.1201771258006 | -0.134278431372548 | -| 9 | 1 | rsm10000014965 | 11.8837168740735 | 0.341458333333334 | -| 10 | 1 | rsm10000020208 | 10.2809848009836 | -0.173866666666667 | -+------------+------------------+----------------+------------------+--------------------+ -10 rows in set (0.000 sec) -``` - -This means for every dataset one single maximum score gets stored (?) - -Moved to +# Tasks -=> ../../topics/systems/mariadb/precompute-mapping-input-data.gmi +* [ ] Add the log values, effect size and number of individuals to the xapian search. + +# Note -* closed +First implementation in + +=> ../../topics/systems/mariadb/precompute-mapping-input-data.gmi |