gclink - Gene-Cluster Discovery, Annotation and Visualization
Performs end-to-end analysis of gene clusters—such as
photosynthesis, carbon/nitrogen/sulfur cycling, carotenoid,
antibiotic, or viral marker genes (e.g., capsid, polymerase,
integrase)—from genomes and metagenomes. It parses Basic Local
Alignment Search Tool (BLAST) results in tab-delimited format
produced by tools like NCBI BLAST+ and Diamond BLASTp, filters
Open Reading Frames (ORFs) by length, detects contiguous
clusters of reference genes, optionally extracts genomic
coordinates, merges functional annotations, and generates
publication-ready arrow plots. The package works seamlessly
with or without the coding sequences input and skips plotting
when no functional groups are found. For more details see Li et
al. (2023) <doi:10.1038/s41467-023-42193-7>.
