Difference between revisions of "Manual Phenotyping Database"
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(updated query statement to sort columns in order by date) |
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===Row-to-Column Query=== | ===Row-to-Column Query=== | ||
| − | + | FOR QUERY OF REPEATED MEASUREMENTS: This query can be used to extract a column format of a repeat measurements (over dates) for a single trait. | |
| − | + | The query below is an example of how to generate a report of the PCTHEAD (percent heading) trait from the 16ASH plots. | |
| + | <syntaxhighlight lang="sql"> | ||
SET SESSION group_concat_max_len = 10000; | SET SESSION group_concat_max_len = 10000; | ||
| − | SET @ | + | SET @SQL = NULL; |
SELECT | SELECT | ||
GROUP_CONCAT(DISTINCT | GROUP_CONCAT(DISTINCT | ||
CONCAT( | CONCAT( | ||
'MAX(IF(phenotype_date = ''', `phenotype_date`, ''',phenotype_value,NULL)) AS ''', `phenotype_date`,'''') | 'MAX(IF(phenotype_date = ''', `phenotype_date`, ''',phenotype_value,NULL)) AS ''', `phenotype_date`,'''') | ||
| − | + | Order by `phenotype_date` ASC ) INTO @SQL FROM phenotype WHERE YEAR(phenotype_date) = 2016; | |
| − | SET @ | + | SET @SQL = CONCAT('SELECT entity_id, ', @SQL, ' |
FROM phenotype WHERE phenotype.entity_id LIKE ''%16ASH0%'' AND phenotype.trait_id LIKE ''%PCTHEAD%'' | FROM phenotype WHERE phenotype.entity_id LIKE ''%16ASH0%'' AND phenotype.trait_id LIKE ''%PCTHEAD%'' | ||
| − | GROUP BY entity_id'); | + | GROUP BY entity_id' ); |
| − | PREPARE stmt FROM @ | + | PREPARE stmt FROM @SQL; |
EXECUTE stmt; | EXECUTE stmt; | ||
DEALLOCATE PREPARE stmt; | DEALLOCATE PREPARE stmt; | ||
| − | |||
</syntaxhighlight> | </syntaxhighlight> | ||
Latest revision as of 19:25, 7 June 2017
The manual phenotyping database contains phenotypic field data that was collected by hand.
The main tables in the manual phenotyping database are shown in the figure below.
Example Queries
Row-to-Column Query
FOR QUERY OF REPEATED MEASUREMENTS: This query can be used to extract a column format of a repeat measurements (over dates) for a single trait.
The query below is an example of how to generate a report of the PCTHEAD (percent heading) trait from the 16ASH plots.
SET SESSION group_concat_max_len = 10000; SET @SQL = NULL; SELECT GROUP_CONCAT(DISTINCT CONCAT( 'MAX(IF(phenotype_date = ''', `phenotype_date`, ''',phenotype_value,NULL)) AS ''', `phenotype_date`,'''') ORDER BY `phenotype_date` ASC ) INTO @SQL FROM phenotype WHERE YEAR(phenotype_date) = 2016; SET @SQL = CONCAT('SELECT entity_id, ', @SQL, ' FROM phenotype WHERE phenotype.entity_id LIKE ''%16ASH0%'' AND phenotype.trait_id LIKE ''%PCTHEAD%'' GROUP BY entity_id' ); PREPARE stmt FROM @SQL; EXECUTE stmt; DEALLOCATE PREPARE stmt;
