Visualize mapped sequence data

Usage

plot_protein(
  mapped_data = NULL,
  protein = NULL,
  row_length = 50,
  samples = NULL,
  modifications = NULL,
  ncol = NULL,
  nrow = NULL,
  color_sequence = "grey60",
  color_modifications = c("red", "blue", "orange", "skyblue", "purple", "yellow"),
  show_modification_precent = TRUE
)

Arguments

mapped_data: a tidyproteomics data-object, specifically of sequencing origin
protein: a character string
row_length: a numeric
samples: a character string
modifications: a character string
ncol: a numeric
nrow: a numeric
color_sequence: a character string
color_modifications: a character vector
show_modification_precent: a boolean

Value

a list of protein mappings

Examples

library(dplyr, warn.conflicts = FALSE)
library(tidyproteomics)

hela_protein_map <- hela_peptides %>%
   protein_map(fasta = path_to_package_data('fasta'))
#> ℹ Parsing FASTA file human.fasta
#> ✔ Parsing FASTA file human.fasta ... done
#> 
#> ℹ Sequence mapping
#>   Sequence mapping ■■■■■■■■■                         25% | ETA:  6s
#>   Sequence mapping ■■■■■■■■■■■■■■■■■■■■              62% | ETA:  2s
#>   Sequence mapping ■■■■■■■■■■■■■■■■■■■■■■■■■■■■■■■  100% | ETA:  0s
#> ℹ Sequence mapping

#> ✔ Sequence mapping ... done
#> 

hela_protein_map %>% plot_protein('P06576')