Main tool: CirculoCov
Code repository:https://github.com/erinyoung/CirculoCov
Additional tools:
- minimap2: 2.26
Basic information on how to use this tool:
- executable: circulocov
- help: --help
- version: --version
- description: Coverage estimates and visualization for circular sequences.
Full documentation: https://github.com/erinyoung/CirculoCov/
# getting coverage without visuals
circulocov -g assembly.fa -i illumina_1.fastq.gz illumina_2.fastq.gz -n nanopore.fastq.gz -p pacbio.fastq.gz -o out
# getting coverage visuals and mapped fastq files
circulocov -g assembly.fa -i illumina_1.fastq.gz illumina_2.fastq.gz -n nanopore.fastq.gz -p pacbio.fastq.gz -o out_all -a