Dataset for distinct microbiomes of the scleractinian coral <em>Favia fragum</em> in mangrove and adjacent reef habitats in the Panamanian Caribbean

This dataset supports a manuscript examining microbial communities associated with the scleractinian coral Favia fragum across mangrove and adjacent reef habitats in the Panamanian Caribbean. The dataset includes the complete analytical workflow and scripts used to process, analyze, and visualize 16S rDNA amplicon sequencing data from coral-associated microbiomes. Demultiplexed amplicon libraries were analyzed in RStudio using the DADA2 pipeline, followed by community-level statistical analyses and visualizations. A finalized phyloseq object is provided, containing all sequences, taxonomy, and metadata necessary to reproduce statistical tests and graphical outputs. All scripts required to replicate the analyses are included, along with PDF versions of the R code. Trimmed and demultiplexed sequencing reads are publicly available through the NCBI Sequence Read Archive under BioProject PRJNA1023296.