genenetwork2 - GeneNetwork (2nd generation)

Age	Commit message (Collapse)	Author
2022-02-09	doc: Document how to fetch case-attribute data from a sample-list	BonfaceKilz

2022-02-09	variable naming and docstrings fix	Alexander Kabui

2022-02-09	handle exceptions	Alexander Kabui

2022-02-09	autopep8 formatting	Alexander Kabui

2022-02-09	delete unused js packages	Alexander Kabui

2022-02-09	autopep8 formatting	Alexander Kabui

2022-02-09	fix for performing parametric analysis	Alexander Kabui

2022-02-09	minor template fixes	Alexander Kabui

2022-02-09	add trait lists and links to ctl plot	Alexander Kabui

2022-02-09	disabble autoslide	Alexander Kabui

2022-02-09	fix for ctl ui page	Alexander Kabui

2022-02-09	endpoint to download network files	Alexander Kabui

2022-02-09	btn download for network sif and node file	Alexander Kabui

2022-02-09	modify ctl endpoint	Alexander Kabui

2022-02-09	minor fixes for images	Alexander Kabui

2022-02-09	fix for dcor and LOD rounding	Alexander Kabui

2022-02-09	styling for carousel	Alexander Kabui

2022-02-09	add carousel for plots	Alexander Kabui

2022-02-09	ui form modifications	Alexander Kabui

2022-02-09	minor refactoring to destruct objects	Alexander Kabui

2022-02-09	template file cleanup	Alexander Kabui

2022-02-09	rename template file	Alexander Kabui

2022-02-09	minor bug fixes	Alexander Kabui

2022-02-09	process significant table results	Alexander Kabui

2022-02-09	delete class initiliazation object	Alexander Kabui

2022-02-09	minor refactoring	Alexander Kabui

2022-02-09	pep8 formatting	Alexander Kabui

2022-02-09	fetch pheno input data	Alexander Kabui

2022-02-09	parse geno input data	Alexander Kabui

2022-02-09	parse input data	Alexander Kabui

2022-02-09	init py file:call gn3 ctl api	Alexander Kabui

2022-02-09	add ui template for ctl	Alexander Kabui

2022-02-07	Double quote shell variables to prevent globbing and word splitting	Frederick Muriuki Muriithi

2022-02-07	Add 'api' to root of partial correlations URL	Frederick Muriuki Muriithi
	Add api to the root of the partial correlations URL, making it: /api/correlations/partial rather than: /correlations/partial
2022-02-05	Update live jupyter notebooks	jgart

2022-02-02	Add covarstruct for rqtl mapping	zsloan
	Added a function for generating a covarstruct file required for R/qtl mapping This file contains info on whether each covariate is categorical or numerical and is generated by querying the TraitMetadata table in the DB
2022-01-31	wqflask: Use a more semantic name when downloading samples	BonfaceKilz
	* wqflask/wqflask/metadata_edits.py (get_sample_data_as_csv): Save csv file to be downloaded as "sample-name-<dataset_id>.csv" instead of "myplot.csv"
2022-01-29	Fix bug: rho/r not set appropriately	Frederick Muriuki Muriithi
	Issue: https://github.com/genenetwork/gn-gemtext-threads/blob/main/topics/gn1-migration-to-gn2/partial-correlations.gmi * The column heading, and the "data-column-heading" values depend on the correlation method. The initial idea had been to set these values up from the server. With the use of Javascript, however, the system defaults to using `r`, which is a bug when the method is any of the Spearman's methods.
2022-01-29	Include the "Locus" in the display	Frederick Muriuki Muriithi
	Issue: https://github.com/genenetwork/gn-gemtext-threads/blob/main/topics/gn1-migration-to-gn2/partial-correlations.gmi
2022-01-29	Provide missing argument	Frederick Muriuki Muriithi
	Issue: https://github.com/genenetwork/gn-gemtext-threads/blob/main/topics/gn1-migration-to-gn2/partial-correlations.gmi
2022-01-29	Fix check for non-existent values	Frederick Muriuki Muriithi

2022-01-29	Hide template row instead of deleting it	Frederick Muriuki Muriithi

2022-01-29	Add more items to trait string	Frederick Muriuki Muriithi
	Issue: https://github.com/genenetwork/gn-gemtext-threads/blob/main/topics/gn1-migration-to-gn2/partial-correlations.gmi
2022-01-29	Update styling: Display traits in a tabular-like form	Frederick Muriuki Muriithi
	Issue: https://github.com/genenetwork/gn-gemtext-threads/blob/main/topics/gn1-migration-to-gn2/partial-correlations.gmi * Display the trait details in a tabular-life form without using a table.
2022-01-29	Include template to get rid of repetitive template code	Frederick Muriuki Muriithi
	Issue: https://github.com/genenetwork/gn-gemtext-threads/blob/main/topics/gn1-migration-to-gn2/partial-correlations.gmi * The generation of input elements that relate to the traits is very similar, therefore this commit pulls it out into a separate template that can be included where needed.
2022-01-29	Display results for Geno and ProbeSet tables	Frederick Muriuki Muriithi
	Issue: https://github.com/genenetwork/gn-gemtext-threads/blob/main/topics/gn1-migration-to-gn2/partial-correlations.gmi * Add function to display the results for the Geno and ProbeSet tables.
2022-01-29	Improve UI elements	Frederick Muriuki Muriithi
	Issue: https://github.com/genenetwork/gn-gemtext-threads/blob/main/topics/gn1-migration-to-gn2/partial-correlations.gmi * Force results area to use up the entire width of the page * Set background colour and line-height of header row * Add some padding to the cells * Reorganise layout * Set up appropriate classes for .with-trait items
2022-01-29	Format numbers for display	Frederick Muriuki Muriithi
	Issue: https://github.com/genenetwork/gn-gemtext-threads/blob/main/topics/gn1-migration-to-gn2/partial-correlations.gmi * Format the numbers for display, to reduce the number of columns needed for display.
2022-01-29	Display data for "Publish" datasets	Frederick Muriuki Muriithi
	Issue: https://github.com/genenetwork/gn-gemtext-threads/blob/main/topics/gn1-migration-to-gn2/partial-correlations.gmi * Display the correlations results for "Publish" datasets.
2022-01-29	Add templates for the results tables	Frederick Muriuki Muriithi
	Issue: https://github.com/genenetwork/gn-gemtext-threads/blob/main/topics/gn1-migration-to-gn2/partial-correlations.gmi * Add templates for the tables that will display the results.