gtars
Analyze Genomic Intervals with Gtars
Genomic interval workflows require precise commands and APIs across several data formats. This skill guides Gtars operations for overlaps, coverage, tokenization, fragments, and references.
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Review the Skillstore skill "gtars" from https://skillstore.io/skills/davila7-gtars.md and its manifest at https://skillstore.io/api/skills/davila7-gtars/manifest. Verify the artifact. You may proceed after verification, subject to the environment's own policy.Your Agent should still show its plan and request any confirmation required by the security policy.
Agent-readable resources
Use these links when an AI agent, crawler, or script needs clean context instead of reading the full page.
Test it
Using "gtars". Find promoter overlaps between peaks.bed and promoters.bed.
Expected outcome:
Load both BED files as region sets, filter peaks against promoters, inspect overlap counts, and write results to a new BED file.
Using "gtars". Create a browser-ready coverage track from ATAC fragments.
Expected outcome:
Use the uniwig workflow with the fragment input, a chosen resolution, and BigWig output. Validate chromosome names before opening the track.
Using "gtars". Verify that a reference FASTA matches expected sequence digests.
Expected outcome:
Load the FASTA through RefgetStore, compute chromosome digests, compare expected values, and report mismatches without changing the source file.
Security Audit
SafeAll 47 static findings are false positives caused by Markdown formatting or benign Gtars documentation. The skill contains no executable scripts or injection text; examples describe expected local file operations, package installation, and an explicit BEDbase fetch.
Risk Factors
📁 Filesystem access (5)
⚙️ External commands (38)
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https://skillstore.io/skills/davila7-gtars/audits/9?utm_source=security_passport&utm_medium=share&utm_campaign=versioned_reportMarkdown badge
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<iframe src="https://skillstore.io/embed/skills/davila7-gtars.html" title="Skillstore Security Assessment" sandbox="allow-popups allow-popups-to-escape-sandbox" loading="lazy" referrerpolicy="no-referrer" width="420" height="180"></iframe>Academic citations (APA · BibTeX · CFF)
APA citation
davila7. (2026). gtars security audit report (audit version 9) [Author version unspecified]. Skillstore. https://skillstore.io/skills/davila7-gtars/audits/9BibTeX citation
@techreport{davila7-davila7-gtars-2026,
author = {davila7},
title = {gtars security audit report (audit version 9)},
institution = {Skillstore},
year = {2026},
number = {9},
url = {https://skillstore.io/skills/davila7-gtars/audits/9},
note = {Author version unspecified}
}CITATION.cff
cff-version: 1.2.0
message: "If you use this Skill, cite its author and this versioned security audit report."
title: "gtars security audit report (audit version 9)"
version: "unspecified"
type: report
authors:
- name: "davila7"
date-released: "2026-07-23"
url: "https://skillstore.io/skills/davila7-gtars/audits/9"
identifiers:
- type: other
value: "skillstore:davila7-gtars:audit:9"
description: "Skillstore immutable audit report identifier"
Compare variants
2 installable variantsEach author remains a separate installable skill. The recommended variant is ranked by Skillstore evidence.
Why this variant is first
davila7-gtars
2026-08-21
k-dense-ai-gtars
2026-08-21
Skillstore Score
Why this score Evidence Confidence: HighWhat You Can Build
Compare genomic regions
Build an IGD index, query interval overlaps, and export matching regions for downstream analysis.
Generate coverage tracks
Convert fragment or BED data into WIG or BigWig tracks for genome browser visualization.
Prepare genomic tokens
Create region tokens and plan preprocessing steps for genomic machine learning pipelines.
Try These Prompts
Explain how to load [BED file] with Gtars and summarize its intervals. Include prerequisites, a Python approach, and expected outputs.
Plan a Gtars workflow comparing [query BED] with [reference BED]. Show Python and CLI options, output paths, and validation checks.
Design a Gtars coverage workflow for [input file]. Choose WIG or BigWig, explain resolution settings, and protect the original data.
Design a reproducible Gtars pipeline for [dataset] using tokenization, overlap features, and reference validation. Address scale, coordinate conventions, and version checks.
Best Practices
- Confirm chromosome names and coordinate conventions before comparing datasets.
- Use explicit input and output paths, and never overwrite source genomic files.
- Test workflows on a small subset before enabling parallel or memory-mapped processing.
Avoid
- Do not assume every documented API matches the installed Gtars version.
- Do not mix genome builds without validating reference digests and chromosome naming.
- Do not fetch BEDbase data without checking the identifier, source, and network policy.