bio-copy-number-cnvkit-analysis
lilinji/GeneTind-Life-SkillsDetect somatic and germline copy number variants from targeted, exome, and whole-genome sequencing with CNVkit, a read-depth caller that combines on-target…
Scores out of 100 · grade B+
2026-08-22Works
40% of the score100/100
- Loads cleanly: valid frontmatter, required fields present, no dangling references.
Maintained
25% of the score94/100
- no commits in the last 12 weeks
- no license file
Adopted
20% of the score13/100
- 8 stars on the source repo.
Documented
15% of the score91/100
- 2,176 words with worked examples.
- Ships 2 bundled files.
Install
npx skills add lilinji/GeneTind-Life-Skills/bio-copy-number-cnvkit-analysisWhat the check found
| Finding | What it means |
|---|---|
| No license | The repository ships no license file, so the reuse terms are unclear. |
What it says it does
Detect somatic and germline copy number variants from targeted, exome, and whole-genome sequencing with CNVkit, a read-depth caller that combines on-target and off-target (antitarget) coverage. Covers panel-of-normals construction, flat-reference tumor-only calling, hybrid/amplicon/WGS modes, CBS vs HMM segmentation selection, purity-aware integer calling, and reconciliation against GATK and allele-specific callers. Use when calling CNVs from hybrid-capture panels or exomes, deciding whether CNVkit (depth-only) is the right tool versus an allele-specific caller, building a panel of normals, diagnosing flat-reference false positives, or interpreting log2 ratios into copy-number states.
Also in lilinji/GeneTind-Life-Skills
| Artifact | Score | What the check found | Type | Reach | Last commit |
|---|---|---|---|---|---|
| arboretolilinji/GeneTind-Life-Skills | No license | Skill | 8 stars | today | |
| aws-cdk-developmentlilinji/GeneTind-Life-Skills | No license | Skill | 8 stars | today | |
| bidslilinji/GeneTind-Life-Skills | No license | Skill | 8 stars | today | |
| adaptyvlilinji/GeneTind-Life-Skills | No license | Skill | 8 stars | today | |
| analyze-fastalilinji/GeneTind-Life-Skills | No license | Skill | 8 stars | today | |
| ancestry-risk-profilerlilinji/GeneTind-Life-Skills | No license | Skill | 8 stars | today |
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