Wikitemplate parser

.gitignore

@@ -1,19 +1,22 @@
-.Rproj.user
+*.ASOIAF.ged
+*.Rproj
+*.knit.md
 .DS_Store
-data-raw/ASOIAF.ged
-R/.Rhistory
+.Rdata
 .Rhistory
-paper/paper.html
+.Rproj.user
+.httr-oauth
+.quarto
+.vscode/launch.json
 /Meta/
-*.knit.md
-vignettes/articles/paper.html
 BGmisc.code-workspace
-tests/testthat/Rplots.pdf
-*.ASOIAF.ged
-ASOIAF.ged
-*.Rproj
+R/.Rhistory
 benchmark_results.csv
-.vscode/launch.json
-dataRelatedPairs_new2.csv
+data-raw/ASOIAF.ged
 data-raw/ASOIAF_040725.ged
 dataRelatedPairs.csv
+dataRelatedPairs_new2.csv
+paper/paper.html
+tests/testthat/Rplots.pdf
+vignettes/articles/paper.html
+.vscode/settings.json

NAMESPACE

@@ -1,8 +1,8 @@
 # Generated by roxygen2: do not edit by hand
 
 export(SimPed)
-export(allGens)
 export(assignCoupleIDs)
+export(buildTreeGrid)
 export(calcAllGens)
 export(calcFamilySize)
 export(calculateRelatedness)
@@ -12,18 +12,17 @@ export(checkPedigreeNetwork)
 export(checkSex)
 export(com2links)
 export(comp2vech)
+export(computeParentAdjacency)
 export(createGenDataFrame)
 export(dropLink)
 export(evenInsert)
-export(extractSummaryText)
-export(famSizeCal)
 export(fitComponentModel)
+export(getWikiTreeSummary)
 export(identifyComponentModel)
 export(inferRelatedness)
 export(insertEven)
 export(makeInbreeding)
 export(makeTwins)
-export(parseTree)
 export(ped2add)
 export(ped2ce)
 export(ped2cn)
@@ -44,7 +43,6 @@ export(relatedness)
 export(repairSex)
 export(resample)
 export(simulatePedigree)
-export(sizeAllGens)
 export(summariseFamilies)
 export(summariseMatrilines)
 export(summarisePatrilines)
@@ -53,6 +51,7 @@ export(summarizeFamilies)
 export(summarizeMatrilines)
 export(summarizePatrilines)
 export(summarizePedigrees)
+export(traceTreePaths)
 export(vech)
 import(data.table)
 import(kinship2)

NEWS.md

@@ -7,6 +7,7 @@
 * list SimPed and related_coef as aliases for functions
 * harmonizing function names like calcFamilySize from famSizeCal
 * implemented adjBeta function to evaluation alternative build method
+* reorganize file names to be more consistent
 
 # BGmisc 1.3.5.1
 * Setting the default for the `sparse` argument in `ped2com()` to TRUE