This repository contains all commands run for the annotation and analysis of the Danaus chrysippus2.2 assembly
This work is associated with the manuscript Singh & De-Kayne et al. 2022 - paper
All commands for the annotation are here:
Singh_et_al_genome_annotation_scripts.txt
R script for the analysis of repeats and input file is here:
Repeat_analysis.R
repeat_summaries.csv
R script for the analysis of intron and exon lengths and input files are here:
introns_exons_t1_only.R
Dchry2_2.exons_length_output.txt
Dchry2_2.introns_length_output.txt
dplex_mex_B.exons_length_output.txt
dplex_mex_B.introns_length_output.txt
dplex_v4_B.exons_length_output.txt
dplex_v4_B.introns_length_output.txt
Commands for the upload of the assembly/annotation/raw Illumina and PacBio reads to ENA:
ENA_upload_commands.txt