Scott Malec, PhD

covariance matrix input option

2

please add option to add covariance or correlation matrix into rcausal Thanks!

graphToDot erring out

2

I am experiencing difficulty with the tetrad runner.tetradGraphToDot method. MacOS. Java 11. ``` > tetradrunner.tetradGraphToDot(tetradrunner$graph) Error in .jcall("edu/cmu/tetrad/graph/GraphUtils", "S", "graphToDot", : method graphToDot with signature ()Ljava/lang/String; not found ``` Let...

dataset loads/reads "twice" into gfci.discrete

2

When I load a dataset into rcausal/gfci.discrete, it seems to load twice, effectively taking twice as long ===> `> rcausal::gfci.discrete(dat) node_names: ade value: [1] 0 1 node_names: medication value: [1]...

Catastrophic error with r-causal javax.xml.documentbuilder

4

Distributor ID: Ubuntu Description: Ubuntu 16.04.2 LTS Release: 16.04 Codename: xenial ``` # note: this works, well, doesn't work, that is, it breaks with "real" (read: "truthy") data as well...

gfci.discrete null pointer exception error

11

When I a

``` f f$bayesIm [1] "Java-Object{\n\nNode: aspirin\n\nvaricosity\tanticoagulants\tvascular_diseases\tesophageal_varices\tmalloryHYPHENweiss_syndrome\tacute_gastric_mucosal_erosion\t\n0\t0\t0\t0\t0\t0\t0.9294\t0.0706 \t\n0\t0\t1\t0\t0\t0\t0.6000\t0.4000\t\n0\t1\t0\t0\t0\t0\t0.7619\t0.2381\t\n0\t1\t1\t0\t0\t0\t�\t�\t\n1\t0\t0\t0 \t0\t0\t0.7586\t0.2414\t\n1\t0\t1\t0\t0\t0\t�\t�\t\n1\t1\t0\t0\t0\t0\t1.0000\t0.0000\t\n1\t1\t1\t0\t0\t0\t�\t� \t\n\nNode: hemorrhoids\n\nesophageal_varices\tmalloryHYPHENweiss_syndrome \tacute_gastric_mucosal_erosion\tmedication\tade\t\n0\t0\t0\t0\t0\t0.9932\t0.0068\t\n0\t0\t0\t0\t1\t0.8367 \t0.1633\t\n0\t0\t0\t1\t0\t0.9468\t0.0532\t\n0\t0\t0\t1\t1\t0.8333\t0.1667\t\n\nNode: varicosity\n \nanticoagulants\tesophageal_varices\tmalloryHYPHENweiss_syndrome \tacute_gastric_mucosal_erosion\tade\t\n0\t0\t0\t0\t0\t0.9901\t0.0099\t\n0\t0\t0\t0\t1\t0.8431\t0.1569 \t\n1\t0\t0\t0\t0\t0.8947\t0.1053\t\n1\t0\t0\t0\t1\t1.0000\t0.0000\t\n\nNode: anticoagulants\n \nliver_cirrhosis\tshigella\tesophageal_... ``` Very cool new feature! Can't wait until it is "purdied" up!

> gfci.discrete( df= maxPathLength= verbose= structurePrior= significance= java.parameters= samplePrior= completeRuleSetUsed= priorKnowledge= maxDegree= faithfulnessAssumed= > gfci.discrete(df = dat) Error: could not find function "gfci.discrete"

whereas output graphNEL from pcmax, gfci.discrete, etc. is valid. FYI! -S

no pcmax implementation in bd2kccd/r-causal

6

Greetings, Please put a means to implement pcmax in r-causal. I am performing randomized sub-sampling of millions of rows/observations (and between 20 to 30K+ discrete binary variables) and I am...

is it possible to increase java heap space?

4

Is it possible to increase java heap space from within R? My data consists of 3.6M observations of 20 variables. This was from using GFCI, the latest addition. Thanks! Error...