dependencies.md

Software Dependencies

fastp minimap2 mmseqs megahit megahit_toolkit samtools rsync vamb

Compiled code

There are two compiled applications, ~/atavide_lite/bin/fastq2fasta and ~/atavide_lite/bin/fastg2gfa

You can compile this code:

cd ~/atavide_lite/bin/
make

Scripts

You will need to these scripts, but they should come with the git repo

~/atavide_lite/bin/vamb_create_fasta.py ~/atavide_lite/bin/count_subsystems.pl ~/atavide_lite/bin/vamb_concatenate.py ~/atavide_lite/bin/easy_taxonomy_to_function.py ~/atavide_lite/bin/mmseqs_report_to_table.py