Final GSoC Work Product

Repositories I worked in:

mil2041/netboxr

sajo25/netboxr

bgruening/galaxytools

Pull requests:

GSoC netboxr Algorithm Updates and Maintenance

Add netboxr tool (beta version) - third attempt

Add netboxr Galaxy tool development files

1. Algorithm Updates

Add useWeights argument to geneConnector function

1. Galaxy

2. Maintenence

Remove cgdsr package-related files from inst

netboxr tests

Add test output files

Add annotateGraph test output

Update test_netboxr.R

Update tests

Update tests and test files

Update test_netboxr.R

Update test output files

Update test_netboxr.R to reflect changes in test output files

GitHub Actions

Change “ebc” to “lec” in examples

Change network to “netbox2010” in examples in annotateGraph

Change geneList length in example in annotateGraph

Change network back to “pathway_commons” in example in annotateGraph

Change title field to title case

Misc

Fix geneList variable for Pathway Commons V8

Change geneList from factor to string in .rda files

Change Factors to Character in netbox2010.rda

Change Factors to Character in pathway_commons_v8_reactome.rda

Resave compressed .rda files

1. Work Still in Progress