evaluate

evaluate#

Evaluate tandem repeat annotation accuracy against a reference.

This subcommand compares annotated motifs (or loci) against a ground-truth reference to compute accuracy metrics. It is useful for benchmarking VAMPIRE on simulated or manually curated datasets.

Usage#

vampire evaluate [options] <input_prefix> <output_prefix>

Example#

vampire evaluate -t 6 results/scan results/eval

Arguments#

Argument

Description

prefix

Input prefix of raw annotation results

output

Output prefix for evaluation results

Options#

Option

Default

Description

-t, --thread, --threads

6

Number of threads

-p, --percentage

75

Threshold percentile for flagging abnormal values (0–100)

-s, --show-distance

False

Show detailed edit distances on the heatmap

Output Files#

Results are written with the provided <output> prefix:

  • Evaluation tables and distance heatmaps comparing annotated vs. reference motifs.

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