Skill
bulk-rnaseq
Prepares bulk RNA-seq FASTQ, Salmon, STAR or featureCounts output for gene-level differential expression. Covers nf-core/rnaseq and standalone quantification, biological replication, strandedness, reference provenance, validated count assembly and a PyDESeq2 handoff. Use for FASTQ-to-counts analysis, nf-core/rnaseq configuration, STAR/Salmon quantification, or building a counts matrix for DESeq2. For single-cell data use scanpy; for statistical fitting alone use pydeseq2.
○ declared by the publisher, as-isSafety
Safety · gatev2.0 · = 92ace75 · assessed 2w ago
B1 severity-bearing
Graded from 1 severity-bearing finding on this release.
A gate; it passes or fails, never weighed against price or quality.
Reliability & Quality
B
Reliability & Qualityv2.0 · = 92ace75 · assessed 2w ago
B0 findings
Graded from 0 severity-bearing findings on this release.
Findings with severity, graded on the same letter scale as safety.
Cost
n/a
Costv2.0 · = 92ace75 · assessed 2w ago
n/anot assessed
Not assessed; no producer has emitted into this category. An absence, not a zero.
Declared external service dependencies. Never a monetary figure.
not assessed
Popularity
4335
Popularity · not a figurev2.0 · = 92ace75 · assessed 2w ago
4335Forks
Read off the linked repository, not off this record. It carries no verdict and enters no grade.
Context read off the linked repository. It enters no ranking and no grade.
Performance tested for◌ not assessed
no controlled task evaluation on this release
Vettd Note
No Vettd note yet for this asset.
Best for
Not for
Re-assessed 2w ago · 6 of 7 categories assessed
Record lookup
◌ Vettd does not install assets; this record describes a copy you obtain yourself.
Custody chainSource ↗○ linked, not verified by Vettd
k-dense-ai ◐k-dense-ai/scientific-agent-skills ○v2.0 = 92ace75 ◐ sha256:c236…ebbf ◐ signature △ not assessedMIT ○record f02383dc-ac8d-4f36-be41-e5ea7826a533 · live
Evidence · 6 of 7 categories · 26 signals
Safety● gradedBmost recent 2w ago4 signals
how it was established4 signals · vettd · scan
show
References external URL — review for indirect prompt injection riskflaggedExternal URL(s) detected in SKILL.md — referenced content can change after auditvettd · scan · 2wMedium
Secrets scan passednothing foundNo secrets or unsafe code patterns were detected.vettd · scan · 2wnothing found
behavioral scan passednothing foundNo prompt-injection or jailbreak signals were detected.vettd · scan · 2wnothing found
Name validation passednothing foundThe declared skill name follows the supported naming rules.vettd · scan · 2wnothing found
Reliability & Quality● gradedBmost recent 2w ago7 signals
how it was established7 signals · vettd · scan
show
Unresolvable internal referencesflaggedUnresolvable internal path(s): scripts/run_enrichment.pyvettd · scan · 2wMedium
Checklist patternreadvettd · scan · 2wabsent
Description usage contextreadvettd · scan · 2wpresent
Examplesreadvettd · scan · 2wpresent
Gotchas sectionreadvettd · scan · 2wabsent
Step-by-step workflowreadvettd · scan · 2wpresent
Validation loopreadvettd · scan · 2wpresent
Performance● measured1 measuredmost recent 2w ago2 signals
how it was establishedtiktoken/cl100k_base/skill-md-body · 2 signals · vettd · scan
show
Progressive disclosurereadvettd · scan · 2wpresent
Static context tokensmeasuredvettd · scan · 2w4072
Cost◌ not assessednot assessed0 signals
how it was establishednot assessed; no producer has emitted into this category
Not assessed; no producer has emitted into cost for this asset. That is different from a check that ran and found nothing, which the record would carry as a row of its own.
Compatibility◌ unjudgednot judgedmost recent 2w ago4 signals
how it was established4 signals · vettd · scan
show
CLI helpreadvettd · scan · 2wpresent
Declared environment assumptionsreadvettd · scan · 2wRequires Python 3.11+ with pandas and numpy; Salmon import also needs pytximport. Read processing needs Nextflow with containers or standalone bioinformatics tools. Network access is needed for installation and reference downloads.
Declared skill namereadvettd · scan · 2wbulk-rnaseq
Structured outputreadvettd · scan · 2wpresent
Popularity◇ context onlynot judgedmost recent 1w ago5 signals
how it was establishedgithub-repo-object · 5 signals · github-api · research
show
Forksmeasuredgithub-api · research · 1w4335
Days since last commitmeasuredgithub-api · research · 1w4 days
Open issuesmeasuredgithub-api · research · 1w23
Starsmeasuredgithub-api · research · 1w48163
Watchersmeasuredgithub-api · research · 1w203
Characteristics◇ context onlynot judgedmost recent 1w ago4 signals
how it was establishedbundle-extension-share · 4 signals · 2 sources · research/scan
show
Declared licensereadvettd · scan · 2wMIT
Primary bundle languageobservedvettd · scan · 2w · conf mediumMarkdown
Repository linkreadvettd · scan · 2wabsent
Archivedreadgithub-api · research · 1wfalse
Coverage6 of 7 categories assessed · shown
Safety
✓ assessed
Secrets scan passed · behavioral scan passed · Name validation passed
Reliability & Quality
✓ assessed
7 signals recorded
Performance
✓ assessed
2 signals recorded
Cost
△ not assessed
no producer has emitted for this category
Compatibility
✓ assessed
4 signals recorded
Popularity
✓ assessed
5 signals recorded
Characteristics
✓ assessed
4 signals recorded
Freshness & re-evaluation
assessed2w ago · Cisco AI Defense · Vettd core● current
source stateThe source matches what was scanned. No changes detected.Up to date
re-check policyre-checked against the upstream source on the scheduler's cadencenext check in 17h
re-run whena new release ships, the upstream source changes, or the scanner ruleset is revisedauto-scheduled
Limitations & open conflicts
limitationCost is not assessed: behaviour there is unmeasured, not clean△ gap
conflictno two sources report the same quantity on this record
Verify: does this record describe your copy?
What record f02383dc-ac8d-4f36-be41-e5ea7826a533 covers
scannerv11● current
validityassessed 2w ago · Up to date
this record was taken at digest sha256:c236cf85b071… compare it against the digest your own scan prints
Reproduce: re-run the evidence yourself
runs the same scanners against your own copy; the published record is never overwritten
How this record comparesagainst other published records · full comparison →
Signal kinds
▲ finding: something to act on, carries a severity● measurement: a reproducible quantityƒ estimate: inferred from a sample▪ fact: read directly off the artifact◆ classification: assigned from a taxonomy◌ nothing found: a producer looked and emitted no object◇ context only: described, never graded
Custody marks◐ computed by vettd○ declared by the publisher, as-is△ not assessed: nothing looked