initial

.Rbuildignore

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+^packrat/
+^\.Rprofile$
+^.*\.Rproj$
+^\.Rproj\.user$

.gitignore

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+packrat/lib*/
+.Rproj.user
+gitignore/

DESCRIPTION

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+Package: vdjbaseVis
+Type: Package
+Title: multiple visualizations for genotypes
+Version: 0.1.0
+Authors@R: c(person("Ayelet", "Peres", role=c("aut","cre"), 
+                    email="[email protected]"),
+            person("Or", "Shemesh", role=c("aut"), 
+                    email="[email protected]"),
+            person("Aviv", "Omer", role=c("aut"), 
+                    email="[email protected]"),
+             person("Gur", "Yaari", role=c("aut","cph"), 
+                    email="[email protected]"))
+Description: Multiple visualizations for genotype data.
+License: CC BY-SA 4.0
+LazyData: true
+BuildVignettes: true
+VignetteBuilder: knitr
+Encoding: UTF-8
+Depends: R (>= 3.2.5), ggplot2 (>= 2.0.0)
+Imports: dplyr (>= 0.5.0), reshape2,  plotly (>= 4.7.1),
+    gtools (>= 3.5.0), cowplot (>= 0.9.1), 
+    stats, dendextend (>= 1.9.0), data.table,
+    ggdendro (>= 0.1.20), gridExtra, alakazam (>= 0.2.10), tigger (>= 0.2.11), fastmatch,
+    methods, htmlwidgets, gtable, grDevices, rlang, RColorBrewer, tidyr, stringi, grid, mltools, splitstackshape
+Suggests: knitr,
+    rmarkdown
+RoxygenNote: 6.1.1
+NeedsCompilation: no
+Collate: 
+    'vdjbaseVis.R'
+    'internal_functions.R'
+    'genoHeatmap.R'
+    'genoHeatmap2.R'
+    'multipleGenotype.R'
+    'zzz.R'

NAMESPACE

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+# Generated by roxygen2: do not edit by hand
+
+export(Write_text)
+export(allelePalette)
+export(draw_segment)
+export(genoHeatmap)
+export(genoHeatmap2)
+export(multipleGenoytpe)
+export(nonReliableAllelesText_V2)
+export(novelAlleleAnnotation)
+export(novelAlleleAnnotation_geno)
+export(sortDFByGene)
+export(splitlines)
+import(dendextend)
+import(ggplot2)
+import(graphics)
+import(methods)
+import(utils)
+importFrom(RColorBrewer,brewer.pal)
+importFrom(alakazam,getGene)
+importFrom(cowplot,background_grid)
+importFrom(cowplot,draw_label)
+importFrom(cowplot,get_legend)
+importFrom(cowplot,ggdraw)
+importFrom(cowplot,plot_grid)
+importFrom(data.table,":=")
+importFrom(data.table,.N)
+importFrom(data.table,CJ)
+importFrom(data.table,data.table)
+importFrom(data.table,rbindlist)
+importFrom(data.table,setDT)
+importFrom(data.table,setkey)
+importFrom(data.table,setorderv)
+importFrom(dplyr,"%>%")
+importFrom(dplyr,arrange)
+importFrom(dplyr,arrange_)
+importFrom(dplyr,as_data_frame)
+importFrom(dplyr,bind_cols)
+importFrom(dplyr,bind_rows)
+importFrom(dplyr,combine)
+importFrom(dplyr,count)
+importFrom(dplyr,count_)
+importFrom(dplyr,data_frame)
+importFrom(dplyr,data_frame_)
+importFrom(dplyr,desc)
+importFrom(dplyr,distinct)
+importFrom(dplyr,do)
+importFrom(dplyr,filter)
+importFrom(dplyr,filter_)
+importFrom(dplyr,funs)
+importFrom(dplyr,group_by)
+importFrom(dplyr,group_by_)
+importFrom(dplyr,mutate)
+importFrom(dplyr,mutate_)
+importFrom(dplyr,mutate_at)
+importFrom(dplyr,n)
+importFrom(dplyr,na_if)
+importFrom(dplyr,pull)
+importFrom(dplyr,rename)
+importFrom(dplyr,rename_)
+importFrom(dplyr,row_number)
+importFrom(dplyr,rowwise)
+importFrom(dplyr,select)
+importFrom(dplyr,select_)
+importFrom(dplyr,slice)
+importFrom(dplyr,summarize)
+importFrom(dplyr,summarize_)
+importFrom(dplyr,summarize_at)
+importFrom(dplyr,transmute)
+importFrom(dplyr,transmute_)
+importFrom(dplyr,ungroup)
+importFrom(fastmatch,"%fin%")
+importFrom(ggdendro,dendro_data)
+importFrom(ggdendro,segment)
+importFrom(grDevices,dev.off)
+importFrom(grDevices,pdf)
+importFrom(grid,gpar)
+importFrom(grid,textGrob)
+importFrom(gridExtra,arrangeGrob)
+importFrom(gtable,gtable_filter)
+importFrom(gtools,ddirichlet)
+importFrom(htmlwidgets,saveWidget)
+importFrom(mltools,bin_data)
+importFrom(plotly,ggplotly)
+importFrom(plotly,layout)
+importFrom(plotly,subplot)
+importFrom(reshape2,melt)
+importFrom(rlang,.data)
+importFrom(splitstackshape,cSplit)
+importFrom(stats,as.dendrogram)
+importFrom(stats,as.dist)
+importFrom(stats,binom.test)
+importFrom(stats,hclust)
+importFrom(stats,p.adjust)
+importFrom(stats,setNames)
+importFrom(stats,weighted.mean)
+importFrom(stringi,stri_detect_fixed)
+importFrom(stringi,stri_detect_regex)
+importFrom(tidyr,drop_na)
+importFrom(tidyr,separate_rows)
+importFrom(tigger,sortAlleles)