genenetwork3 - GeneNetwork3 REST API for data science and machine learning

Age	Commit message (Expand)	Author
2022-02-11	Quote shell variables to prevent globbing...Quote the shell variables to prevent globbing and word splitting. Deactivate this check for the specific lines that require intentional word splitting	Frederick Muriuki Muriithi
2022-02-02	Fix R/qtl covar bug...The rqtl_wrapper script was throwing an error when only a single categorical covariate was used. This is apparently because "covars[,name]" throws an error in such a situation. Using just "covars" in such a situation prevents the error. So I just added an if statement checking the number of covariates. There might be some better way to deal with this in R, but this is the best I could come up with.	zsloan
2022-02-02	remove comments	Alexander Kabui
2022-02-02	match case string input to boolean	Alexander Kabui
2022-02-02	fix for parametric input	Alexander Kabui
2022-02-02	use user input significance	Alexander Kabui
2022-02-02	new line fix	Alexander Kabui
2022-02-02	add new json output	Alexander Kabui
2022-01-22	minor refactoring	Alexander Kabui
2022-01-22	function override:fix target specific output file for network	Alexander Kabui
2022-01-22	generate network	Alexander Kabui
2022-01-22	generate ctl plots for each trait	Alexander Kabui
2022-01-22	fixes for ctl script:generate ctl ctl_significant json	Alexander Kabui
2022-01-22	bugfixes for script;create pheno and geno objects	Alexander Kabui
2022-01-22	generate lineplot	Alexander Kabui
2022-01-22	minor fix:read input data from json file	Alexander Kabui
2022-01-22	export json data	Alexander Kabui
2022-01-22	get significant interactions	Alexander Kabui
2022-01-22	perform the ctl scan	Alexander Kabui
2022-01-22	fetch genotypes and phenotype files	Alexander Kabui
2022-01-22	init script ctl analysis	Alexander Kabui
2021-12-22	Refactor wgcna (#63)...* add r as a gn3 input * calculate powers from user input * fix merge conflict	Alexander Kabui
2021-10-29	Feature/biweight reimplementation (#47)...* add biweight reimplementation with pingouin * delete biweight scripts and tests * add python-pingouin to guix file * delete biweight paths * mypy fix:pingouin mising imports * pep8 formatting && pylint fixes	Alexander Kabui
2021-10-25	minor fixes for sript enable annotations	Alexander Kabui
2021-10-25	script modification : add debug statements	Alexander Kabui
2021-10-14	Fixed when model is set to account for situations with no covariates	zsloan
2021-10-14	Incorporated Danny's code for calculating QTL main effects into rqtl_wrapper.R	zsloan
2021-10-12	Merge branch 'main' of https://github.com/genenetwork/genenetwork3 into bug/f...	zsloan
2021-09-27	remove unnecessary comments and variables	Alexander Kabui
2021-09-23	Fix covariates as described by Danny	zsloan
2021-09-23	add traits as columns names and pass as json input	Alexander Kabui
2021-09-23	check for na powerEst and use a default value	Alexander Kabui
2021-09-23	append input to output	Alexander Kabui
2021-09-23	sample output data	Alexander Kabui
2021-09-23	validate required output	Alexander Kabui
2021-09-23	add mock test data for script	Alexander Kabui
2021-09-23	pass json file path as an arg	Alexander Kabui
2021-09-23	pass other variables from user input for network constr	Alexander Kabui
2021-09-23	load data from json file and and convert to dt	Alexander Kabui
2021-09-15	minor fixes	Alexander Kabui
2021-09-15	rename variables && delete debugs	Alexander Kabui
2021-09-15	Fetch IMAGE_DIR env and add img location	Alexander Kabui
2021-09-14	remove debug statements	Alexander Kabui
2021-09-14	function to generate rand str for image	Alexander Kabui
2021-09-14	plot plotDendroAndColors and generate png	Alexander Kabui
2021-09-14	construct gene co-expression network & module detection	Alexander Kabui
2021-09-14	compute the softthreshhold	Alexander Kabui
2021-09-14	Checking data for excessive missing values	Alexander Kabui
2021-09-14	load the required data for analysis	Alexander Kabui
2021-09-14	init commit for wgcna script	Alexander Kabui