analyse-dists

name	analyse-dists
description	Use when passing legacy ViennaRNA distance-matrix data through the AnalyseDists helper for simple formatting or downstream plotting workflows.
disable-model-invocation	true
user-invocable	true

analyse-dists

Legacy ViennaRNA helper around stdin distance-matrix data. The skill name is lowercase, but the real executable is the capitalized binary AnalyseDists.

Quick Start

• Skill name: analyse-dists
• Real executable: AnalyseDists
• Local executable: /home/vimalinx/miniforge3/envs/bio/bin/AnalyseDists

When To Use This Tool

• Pass an existing distance matrix through a ViennaRNA helper without writing a custom parser.
• Keep a legacy ViennaRNA workflow that expects AnalyseDists / AnalyseDist style post-processing.
• Toggle the old compact -X[swn] modifier family on matrix-style stdin data.
• Use this only when you already have distance-matrix text; it is not a sequence aligner or structure predictor.

Common Patterns

# 1) Feed a small matrix on stdin
printf '0 1\n1 0\n' |
PATH=/home/vimalinx/miniforge3/envs/bio/bin:$PATH \
AnalyseDists

# 2) Apply one of the legacy -X modifiers while keeping stdin-based usage
printf '0 1\n1 0\n' |
PATH=/home/vimalinx/miniforge3/envs/bio/bin:$PATH \
AnalyseDists -Xn

Recommended Workflow

1. Prepare the distance matrix upstream and keep it available on stdin, because the usage string advertises no positional input file.
2. Invoke the real binary name AnalyseDists, not the lowercase skill folder name.
3. Smoke-test the matrix without modifiers first, then add -Xs, -Xw, or -Xn only if your downstream tool actually depends on them.
4. Compare stdout on a tiny matrix before trusting the transformation on large datasets.

Guardrails

• The executable name and the skill name do not match: the binary is AnalyseDists, and the embedded usage text even says AnalyseDist in the singular.
• -h, --help, and --version do not produce clean metadata output here; they all collapse to the same [ERROR] usage: AnalyseDist [-X[swn]] path.
• Live smoke tests with a tiny 2 x 2 matrix simply echoed the matrix back on stdout, both with no flags and with -Xn, so validate that the chosen modifier actually changes what you need.
• Local evidence only confirms the compact -X[swn] family from the usage string; option semantics beyond that were not recoverable from runnable help.