This repository is part of the supplemental information on Ribosomal Incorporation of Short RNAs from Mitochondrial Genome Recombination Sites in Toxoplasma gondii. In brief we identified Toxoplasma gondii mitochondiral coding blocks on nanopore seqeuncing reads and investigated their pairings and orientations.
Toxo_BlockOrientations_public.Rmd contains all code as well as detailed explanations for the block orientation analysis presented in the paper, Toxo_BlockOrientations_public.html is the rendered .html file of this report
/data contains the extracted annotations from all reads in a .tsv file, further, raw.txt has the link to all raw data that was uploaded for this publication
/plots has the generated heatmap, for the publications some minor styling changes were made in adobe illustrator
/tables contains the supplementary .csv files generated by R as well as some restyled .xlsx files
Below you can find the versions of R as well as the libraries that were used to generate this report.
R version 4.3.1 (2023-06-16 ucrt)
circlize_0.4.15
ComplexHeatmap_2.16.0
stringi_1.7.12
lubridate_1.9.2
forcats_1.0.0
stringr_1.5.0
dplyr_1.1.3
purrr_1.0.2
readr_2.1.4
tidyr_1.3.0
tibble_3.2.1
ggplot2_3.4.3
tidyverse_2.0.0