Files in YuLab-SMU/ggmsa
Plot Multiple Sequence Alignment using 'ggplot2'
.Rbuildignore
.gitignore
CONDUCT.md
DESCRIPTION
Makefile
NAMESPACE
NEWS.md
R/AllClasses.R
R/SeqBundles.R
R/ancestor_seq.R
R/arc.R
R/available.R
R/clustal.R
R/color_by_conservation.R
R/color_else.R
R/cons.R
R/data.R
R/dms.R
R/facet_msa.R
R/geom_GC.R
R/geom_asterisk.R
R/geom_msa.R
R/geom_msaBar.R
R/geom_seed.R
R/ggmaf.R
R/ggmsa.R
R/import-functions.R
R/method-plot.R
R/method-show.R
R/methods-diff.R
R/methods-ggplot_add.R
R/msa_data.R
R/pp_interactive.R
R/prepare_fasta.R
R/read_maf.R
R/seqdiff.R
R/seqlogo.R
R/simplot.R
R/sysdata.rda
R/theme_msa.R
R/zzz.R
README.Rmd
README.md
inst/CITATION
inst/extdata/GVariation/A.Mont.fas
inst/extdata/GVariation/B.Oz.fas
inst/extdata/GVariation/C.Wilga5.fas
inst/extdata/GVariation/sample_alignment.fa
inst/extdata/Gram-negative_AKL.fasta
inst/extdata/Gram-positive_AKL.fasta
inst/extdata/LeaderRepeat_All.fa
inst/extdata/Rfam/RF00458.fasta
inst/extdata/Rfam/RF03120.fasta
inst/extdata/Rfam/RF03120_SS.txt
inst/extdata/TP53_genes.xlsx
inst/extdata/sample.fasta
inst/extdata/seedSample.fa
inst/extdata/sequence-link-tree.fasta
inst/extdata/tp53.fa
man/GVariation.Rd
man/Gram-negative_AKL.fasta.Rd
man/Gram-positive_AKL.fasta.Rd
man/LeaderRepeat_All.fa.Rd
man/Rfam.Rd
man/TP53_genes.xlsx.Rd
man/adjust_ally.Rd
man/assign_dms.Rd
man/available_colors.Rd
man/available_fonts.Rd
man/available_msa.Rd
man/extract_seq.Rd
man/facet_msa.Rd
man/figures/REAMED-unnamed-chunk-6-1.png
man/figures/logo.png
man/geom_GC.Rd
man/geom_helix.Rd
man/geom_msa.Rd
man/geom_msaBar.Rd
man/geom_seed.Rd
man/geom_seqlogo.Rd
man/ggSeqBundle.Rd
man/gghelix.Rd
man/ggmaf.Rd
man/ggmsa.Rd
man/merge_seq.Rd
man/plot-methods.Rd
man/readSSfile.Rd
man/read_maf.Rd
man/reset_pos.Rd
man/sample.fasta.Rd
man/seedSample.fa.Rd
man/seqdiff.Rd
man/seqlogo.Rd
man/sequence-link-tree.fasta.Rd
man/show-methods.Rd
man/simplify_hdata.Rd
man/simplot.Rd
man/theme_msa.Rd
man/tidy_hdata.Rd
man/tidy_maf_df.Rd
man/tidy_msa.Rd
man/tp53.fa.Rd
man/treeMSA_plot.Rd
tests/testthat.R
tests/testthat/test-main.R
tests/testthat/test-msa_data.R
tests/testthat/test-tidy_msa.R
vignettes/.gitignore
vignettes/ggmsa.Rmd
vignettes/ggmsa.bib
vignettes/man/figures/schemes.png
vignettes/man/figures/workflow.png
