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gn-uploader: Data uploader for GeneNetwork
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14 days
Check for errors in `pheno` files.
Frederick Muriuki Muriithi
2024-10-21
Check `phenocovar` files for errors.
Frederick Muriuki Muriithi
2024-10-17
Cleanup: Delete all extracted files after processing.
Frederick Muriuki Muriithi
2024-10-17
Leave TODO notes for what needs to be done.
Frederick Muriuki Muriithi
2024-10-17
Fetch samples from database
Frederick Muriuki Muriithi
2024-10-17
Undo transpose for any transposed files
Frederick Muriuki Muriithi
2024-10-17
Pass new arguments to QC function.
Frederick Muriuki Muriithi
2024-10-17
Add `speciesid` and `populationid` arguments to the script.
Frederick Muriuki Muriithi
2024-10-17
Add the working directory argument to the script.
Frederick Muriuki Muriithi
2024-10-17
Extract the R/qtl2 bundle for processing.
Frederick Muriuki Muriithi
2024-10-17
Extract common functions.
Frederick Muriuki Muriithi
2024-10-14
Initialise background script for running QC on phenotype bundles.
Frederick Muriuki Muriithi
2024-10-14
BugFix: Use provided prefix
Frederick Muriuki Muriithi
2024-10-14
Make addition of arguments independent of each other.
Frederick Muriuki Muriithi
2024-08-16
Log out correct parameters.
Frederick Muriuki Muriithi
2024-08-13
Bug: cross reference with NULL cM when "gmap" file is absent
Frederick Muriuki Muriithi
2024-08-08
Fix bugs and pass in logger to functions.
Frederick Muriuki Muriithi
2024-08-06
Pass logger on to inner functions
Frederick Muriuki Muriithi
2024-07-25
Rename module: qc_app --> uploader
Frederick Muriuki Muriithi
2024-07-05
bug: Return a hashable key, not a dict.
Frederick Muriuki Muriithi
2024-07-02
Call correct method.
Frederick Muriuki Muriithi
2024-07-02
Ensure no duplicated values for the query.
Frederick Muriuki Muriithi
2024-04-03
Reduce size of data inserted per query
Frederick Muriuki Muriithi
2024-02-15
Filter out NULL values
Frederick Muriuki Muriithi
2024-02-05
Fix linting and type errors.
Frederick Muriuki Muriithi
2024-01-23
Update scripts to use redis prefix.
Frederick Muriuki Muriithi
2024-01-22
scripts: Pass in logger to get detailed updates.
Frederick Muriuki Muriithi
2024-01-19
scripts: Process R/qtl2 bundle
Frederick Muriuki Muriithi
2024-01-16
Filter out items with values of `None`.
Frederick Muriuki Muriithi
2024-01-15
Update imports: `take` was moved to different package.
Frederick Muriuki Muriithi
2024-01-15
Process the `pheno` files.
Frederick Muriuki Muriithi
2024-01-15
Initialise `install_phenos` script.
Frederick Muriuki Muriithi
2024-01-15
Extract common structure into separate modules.
Frederick Muriuki Muriithi
2024-01-11
Update pmap data in the database.
Frederick Muriuki Muriithi
2024-01-11
Update gmap data in the database
Frederick Muriuki Muriithi
2024-01-11
Cleanup linting and typing errors.
Frederick Muriuki Muriithi
2024-01-11
CLI: Require datasetid as an argument.
Frederick Muriuki Muriithi
2024-01-10
Provide convenience functions to avoid subtle call errors
Frederick Muriuki Muriithi
2024-01-10
Cross-reference genotype data to the dataset.
Frederick Muriuki Muriithi
2024-01-10
Insert genotype data.
Frederick Muriuki Muriithi
2024-01-10
Cross-reference individuals to populations.
Frederick Muriuki Muriithi
2024-01-10
Insert any new individuals/samples into the database.
Frederick Muriuki Muriithi
2024-01-10
Insert any new markers
Frederick Muriuki Muriithi
2024-01-09
WIP: Install genotypes from R/qtl2 bundle
Frederick Muriuki Muriithi
