Search: "overlap"

Supports Gtars for local genomic interval models and set algebra, overlaps and counts, consensus and coverage, tokenization, fragment processing, and refget/BEDbase planning across Python, Rust, and the CLI.

Performs genomic interval overlap, nearest, merge, coverage, complement and subtraction on Polars DataFrames, and reads or writes BED, VCF, BCF, BAM, CRAM, GFF, GTF, FASTA and FASTQ data. Use for coordinate-aware genomic joins, read-depth analysis, lazy bioinformatics I/O, SQL queries or migration from bioframe.

Processes paired-end 16S amplicon reads into QIIME 2 ASVs and taxonomy with retained artifact provenance. Checks paired FASTQ manifests, primer orientation diagnostics, predicted post-trimming overlap, sample IDs, runtime versions and read retention, and guides selection of compatible taxonomic classifiers.

Augments Trailmark code graphs with external audit findings from SARIF static analysis results, weAudit annotation files, and version-gated Trailmark 0.4.x binary-analysis graph exports. Maps findings to graph nodes by file and line overlap, creates severity-based subgraphs, and enables cross-referencing findings with pre-analysis data (blast radius, taint, etc.). Use when projecting SARIF results onto a code graph, overlaying weAudit annotations, importing binary graph findings, cross-referencing Semgrep, CodeQL, or binary-analysis findings with call graph data, or visualizing audit findings in the context of code structure.

Premium pack. A deep cross-brand, cross-network portfolio analysis for an agency: revenue concentration, partner overlap across brands, reversal outliers, and the brands most exposed to a single partner or network. Goes beyond the free headline rollup. Trigger on: "deep dive the whole portfolio", "where is our agency revenue concentrated", "which brands are over-reliant on one partner".