| 64e5f9d1 |
# Generated by roxygen2: do not edit by hand
S3method(diff,SeqDiff)
S3method(ggplot_add,GCcontent)
S3method(ggplot_add,facet_msa)
S3method(ggplot_add,msaBar)
S3method(ggplot_add,nucleotideeHelix)
S3method(ggplot_add,seed)
S3method(ggplot_add,seqlogo)
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| ba9d28ac |
export(adjust_ally)
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| 63ff794d |
export(assign_dms)
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| 64e5f9d1 |
export(available_colors)
export(available_fonts)
export(available_msa)
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| ba9d28ac |
export(extract_seq)
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| 64e5f9d1 |
export(facet_msa)
export(geom_GC)
export(geom_helix)
export(geom_msa)
export(geom_msaBar)
export(geom_seed)
export(geom_seqlogo)
export(ggSeqBundle)
export(gghelix)
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| ba9d28ac |
export(ggmaf)
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| 64e5f9d1 |
export(ggmsa)
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| ba9d28ac |
export(merge_seq)
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| 64e5f9d1 |
export(readSSfile)
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| ba9d28ac |
export(read_maf)
export(reset_pos)
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| 64e5f9d1 |
export(seqdiff)
export(seqlogo)
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| ba9d28ac |
export(simplify_hdata)
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| 64e5f9d1 |
export(simplot)
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| 4ff1aa7b |
export(theme_msa)
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| ba9d28ac |
export(tidy_hdata)
export(tidy_maf_df)
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| 64e5f9d1 |
export(tidy_msa)
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| 9d0d9c7a |
export(treeMSA_plot)
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| 64e5f9d1 |
exportMethods(plot)
exportMethods(show)
importClassesFrom(Biostrings,BStringSet)
importFrom(Biostrings,AAStringSet)
importFrom(Biostrings,DNAStringSet)
importFrom(Biostrings,RNAStringSet)
importFrom(Biostrings,readBStringSet)
importFrom(Biostrings,readDNAStringSet)
importFrom(Biostrings,toString)
importFrom(Biostrings,width)
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| ba9d28ac |
importFrom(R4RNA,as.helix)
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| 64e5f9d1 |
importFrom(R4RNA,collapseHelix)
importFrom(R4RNA,expandHelix)
importFrom(R4RNA,readBpseq)
importFrom(R4RNA,readConnect)
importFrom(R4RNA,readHelix)
importFrom(R4RNA,readVienna)
importFrom(RColorBrewer,brewer.pal)
importFrom(aplot,insert_top)
importFrom(aplot,plot_list)
importFrom(dplyr,group_by)
importFrom(dplyr,group_by_)
importFrom(dplyr,n)
importFrom(dplyr,select)
importFrom(dplyr,summarize)
importFrom(dplyr,summarize_)
importFrom(ggforce,geom_arc)
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| 3cff04ab |
importFrom(ggfun,geom_xspline)
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| 64e5f9d1 |
importFrom(ggplot2,Geom)
importFrom(ggplot2,aes)
importFrom(ggplot2,aes_)
importFrom(ggplot2,coord_cartesian)
importFrom(ggplot2,coord_fixed)
importFrom(ggplot2,draw_key_polygon)
importFrom(ggplot2,element_blank)
importFrom(ggplot2,element_line)
importFrom(ggplot2,element_text)
importFrom(ggplot2,facet_wrap)
importFrom(ggplot2,geom_area)
importFrom(ggplot2,geom_blank)
importFrom(ggplot2,geom_col)
importFrom(ggplot2,geom_line)
importFrom(ggplot2,geom_point)
importFrom(ggplot2,geom_polygon)
importFrom(ggplot2,geom_ribbon)
importFrom(ggplot2,geom_segment)
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| d5d2a6f2 |
importFrom(ggplot2,geom_smooth)
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| ba9d28ac |
importFrom(ggplot2,geom_text)
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| 64e5f9d1 |
importFrom(ggplot2,geom_tile)
importFrom(ggplot2,ggplot)
importFrom(ggplot2,ggplot_add)
importFrom(ggplot2,ggplot_build)
importFrom(ggplot2,ggplot_gtable)
importFrom(ggplot2,ggproto)
importFrom(ggplot2,ggtitle)
importFrom(ggplot2,labs)
importFrom(ggplot2,layer)
importFrom(ggplot2,scale_color_manual)
importFrom(ggplot2,scale_fill_gradientn)
importFrom(ggplot2,scale_fill_manual)
importFrom(ggplot2,scale_x_continuous)
importFrom(ggplot2,scale_y_continuous)
importFrom(ggplot2,theme)
importFrom(ggplot2,theme_bw)
importFrom(ggplot2,theme_minimal)
importFrom(ggplot2,theme_void)
importFrom(ggplot2,xlab)
importFrom(ggplot2,xlim)
importFrom(ggplot2,ylab)
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| 4ff1aa7b |
importFrom(ggtree,geom_facet)
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| ba9d28ac |
importFrom(ggtree,geom_tiplab)
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| 64e5f9d1 |
importFrom(grDevices,colorRampPalette)
importFrom(grid,arrow)
importFrom(grid,gTree)
importFrom(grid,gpar)
importFrom(grid,polygonGrob)
importFrom(grid,unit)
importFrom(grid,unit.pmax)
importFrom(magrittr,"%<>%")
importFrom(magrittr,"%>%")
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| d0f90a7a |
importFrom(methods,missingArg)
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| 64e5f9d1 |
importFrom(methods,new)
importFrom(methods,show)
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| d0f90a7a |
importFrom(seqmagick,fa_read)
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| 64e5f9d1 |
importFrom(stats,setNames)
importFrom(tidyr,gather)
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| ba9d28ac |
importFrom(utils,getFromNamespace)
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| 64e5f9d1 |
importFrom(utils,globalVariables)
importFrom(utils,modifyList)
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| b89de869 |
importFrom(utils,packageDescription)
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| 64e5f9d1 |
importFrom(utils,read.delim)
|
