Collection of JP books, Rcode & circos configuration files for the prokaryotic viruses associated with bees (https://doi.org/10.1073/pnas.1921859117).
Raw fasta files are available at:
- 2Stats/data/Putativephage_DNARNA.fna (nucleotide)
- 2Stats/data/Putativephage_DNARNA.faa (proteins, prodigal predicted)
Creates sample / contig sharing networks from coverage / count data.
Basic genome statistics, Host calling information, dimension reduction (PHATE/PCoA).
Output processing of vConTACT2, taxonomy parsing, phylogenetic distances, and network distances.
Protein annotation information, protein statistics (coding density & strandshift), selection statistics parsing.
Incorporates information on classification, host, genome constellation and length together for contig renaming.
Circos code for genome const. secondary metabolites gene clusters.
R scripts used for some plots.