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ucsc-conservation-and-tfbs

Fetch Evolutionary Conservation scores (phyloP, phastCons) and Transcription Factor Binding Sites (TFBS) from the UCSC Genome Browser. Use when analyzing whether genomic variants or regions are evolutionarily conserved, functionally important, or bounded by TF regulators across major projects (ENCODE, JASPAR, ReMap).

skills/ucsc_conservation_and_tfbs/SKILL.md

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# Conservation Scores & TFBS Lookup (UCSC)

This skill provides access to evolutionary constraint scores and conserved
elements from the UCSC Genome Browser. It retrieves scores from the PHAST
package — specifically `phastCons` (identifying functional blocks) and `phyloP`
(measuring individual site constraint) — calculated from multiple alignments.

Use this skill to determine if a non-coding variant hits a site that hasn't
changed since a common ancestor (which is a strong signal for pathogenicity) or
to find conservation peaks across a regulatory element.

## Prerequisites

1.  **`uv`**: Read the `uv` skill and follow its Setup instructions to ensure