ancestor | Compute the ancestor of a gff feature |
as.multiPhylo.list | Convert a List into multiPhylo Object |
clean_tips | Remove Missing Tips |
distance | Compute great circle distances |
enable_TODO | Enable/Disable TODO() messages |
flip_descendants | Flip Descendant Clades |
get_children | Get Child Nodes |
gg_color_hue | ggplot default color vector |
ggtreeplot | Create a ggplot next to a ggtree |
index_by | Index by keys preserving order |
mount_mit | Mount MIT remote drives |
no_grid | Remove grid from ggplot |
no_legend | Remove legend from ggplot |
no_x_axis | Remove x-axis from ggplot |
no_y_axis | Remove y-axis from ggplot |
pkg_update | Document and reload dev package |
prune_long_tip_branches | Prune very long branches |
qw | Create a vector from unquoted words. |
read_bed | Read a .bed file |
read_blast | Read a BLAST .tsv files |
read_eggnog | Read EggNOG-mapper annotation .tsv files. |
read_fai | Read fasta index |
read_gff | Read a .gff file |
read_hmmer | Read a HMMER .tbl/tsv file |
read_interpro | Read InterProScan .tsv files. |
read_paf | Read a .paf file (minimap/minimap2). |
reexports | Objects exported from other packages |
reroot_by_outgroup | Reroot Tree by Outgroup |
scale_y_tree | Continious y-scale with fixed expansion space |
session_info_diff | Compare sessionInfo()s |
set_class | Modify object class attriutes |
split_by | Split by key preserving order |
str_which_unique | Keep strings uniquely matching a pattern, or find positions. |
TODO | Add TODO statements. See 'enable/distable_TODO' for control... |
tree_y | Get tree-based y-coordinates |
tree_ylim | Get the range of the ggtree y-axis data |
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