The Agent Skills Directory

[COMMAND_EXECUTION]: The skill defines shell scripts and instructions for executing standard bioinformatics CLI tools, including dorado, samtools, pod5, chopper, and NanoPlot. These are used for processing raw sequencing signals into nucleotide sequences.
[EXTERNAL_DOWNLOADS]: The skill facilitates the download of pre-trained genomic models from the official Oxford Nanopore Technologies (ONT) servers using the dorado download command. It also points to the official ONT GitHub repository for tool installation.
[EXTERNAL_DOWNLOADS]: The documentation includes instructions to install necessary dependencies like pod5 via pip and quality-control tools via the bioconda channel, which are standard practices in the bioinformatics community.

bio-basecalling