Integrated Candida spp fungal genomics reports

Compact demonstration report for a small Candida benchmark dataset, showing read QC, species typing, assembly assessment, antifungal-resistance marker screening & phylogenetic relatedness outputs.

Intermediate-scale benchmark report for evaluating rMAP-Candida across multiple Candida species, with species-aware phylogenomics, BUSCO/completeness summaries, SNP-distance outputs & AMR marker screening.

Larger benchmark report demonstrating workflow scalability for Candida genome surveillance, including QC, species typing, assembly-quality summaries, AMR marker screening & phylogenetic relatedness outputs.

Ten-sample demonstration showing how surveillance metadata can be added to the workflow and carried into the HTML report, including sample source, geography, collection details, species calls, AMR markers & phylogenetic relatedness summaries.

Country-specific surveillance report for South African Candida genome datasets, integrating species typing, assembly assessment, antifungal-resistance marker screening, SNP-distance outputs & phylogenetic relatedness summaries.

Country-specific surveillance report for Kenyan Candida genome datasets, showing sample-level species calls, assembly-quality summaries, antifungal-resistance marker screening & phylogenetic relatedness outputs.

Country-specific surveillance report for Nigerian Candida genome datasets, combining read QC, species typing, assembly assessment, antifungal-resistance marker screening, SNP-distance analysis & phylogenetic relatedness.

Clinical surveillance report for the Ugandan Candida dataset, integrating sample-level species typing, assembly assessment, antifungal-resistance marker screening, SNP-distance outputs & species-aware phylogenetic relatedness.

Minimal two-sample reproducibility report demonstrating end-to-end workflow consistency, including read QC, species typing, assembly assessment, antifungal-resistance marker screening and phylogenetic relatedness.