Files in BRL-BCM/CTD
A Method for 'Connecting The Dots' in Weighted Graphs
.Rbuildignore
.gitignore
CTD.py
CTD.r
Colab_CTD_PLOSCB.ipynb
DESCRIPTION
LICENSE
NAMESPACE
NEWS
Python/README.md
Python/__init__.py
Python/data.py
Python/gba_analysis.py
Python/graph.py
Python/main_gba.py
Python/mle.py
Python/rankings.py
Python/requirements.txt
R/data.Miller2015.r
R/data.Thistlethwaite2020.r
R/data.Wangler2017.r
R/data.cohorts_coded.r
R/data.combineData.r
R/data.imputeData.r
R/data.surrogateProfiles.r
R/data.zscoreData.r
R/graph.connectToExt.r
R/graph.diffuseP1.r
R/graph.diffusionSnapShot.r
R/graph.naivePruning.r
R/graph.netWalkSnapShot.r
R/mle.getEncodingLength.r
R/mle.getMinPtDistance.r
R/mle.getPtBSbyK.r
R/mle.getPtDist.r
R/multiNode.getNodeRanks.r
R/singleNode.getNodeRanksN.r
R/stat.entropyFunction.r
R/stat.fishersMethod.r
R/stat.getDirSim.r
README.md
R_vs_Python_comparison.py
data/Miller2015.RData
data/Thistlethwaite2020.RData
data/Wangler2017.RData
data/cohorts_coded.RData
data/example_1/adj.csv
data/example_1/adj.tsv
data/example_1/control.csv
data/example_1/experimental.csv
data/example_2/adj.csv
data/example_2/adj.tsv
data/example_2/control.csv
data/example_2/experimental.csv
data/example_argininemia/adj.csv
data/example_argininemia/control.csv
data/example_argininemia/experimental.csv
data/example_argininemia/experimental.json
data/example_argininemia/prepare_data.R
data/example_citrullinemia/adj.csv
data/example_citrullinemia/control.csv
data/example_citrullinemia/experimental.csv
data/example_citrullinemia/experimental.json
docker/Dockerfile
inst/CITATION
inst/images/cgc_task.png
kegg_s_module.zip
man/Miller2015.Rd
man/Thistlethwaite2020.Rd
man/Wangler2017.Rd
man/cohorts_coded.Rd
man/data.combineData.Rd
man/data.imputeData.Rd
man/data.surrogateProfiles.Rd
man/data.zscoreData.Rd
man/graph.connectToExt.Rd
man/graph.diffuseP1.Rd
man/graph.diffusionSnapShot.Rd
man/graph.naivePruning.Rd
man/graph.netWalkSnapShot.Rd
man/mle.getEncodingLength.Rd
man/mle.getMinPtDistance.Rd
man/mle.getPtBSbyK.Rd
man/mle.getPtDist.Rd
man/multiNode.getNodeRanks.Rd
man/singleNode.getNodeRanksN.Rd
man/stat.entropyFunction.Rd
man/stat.fishersMethod.Rd
man/stat.getDirSim.Rd
notebooks/figure_gene_exp.ipynb
notebooks/figure_open_targets_pubmed.ipynb
notebooks/prepare_open_targets.ipynb
tests/__init__.py
tests/gba.sh
tests/test_gba.py
tests/test_gene_exp.py
tests/testthat.R
tests/testthat/test-data.r
vignettes/CTD_Lab-Exercise.Rmd
vignettes/images/probability_diffusion.png
vignettes/r-env-setup-script.R
