arboreto

Infer gene regulatory networks (GRNs) from gene expression data using scalable algorithms (GRNBoost2, GENIE3). Use when analyzing transcriptomics data (bulk RNA-seq, single-cell RNA-seq) to identify transcription factor-target gene relationships and regulatory interactions. Supports distributed computation for large-scale datasets.

1.31x

Quality

86%

Does it follow best practices?

Impact

100%

1.31x

Average score across 3 eval scenarios

Securityby

Passed

No known issues

Evaluation results

100%

44%

Identify Transcription Factor Targets in a Lung Cancer Dataset

Basic GRN inference with TF filtering

Criteria

Without context

With context

Main guard present

100%

GRNBoost2 used

100%

load_tf_names used

100%

TF filtering applied

100%

Seed set

100%

Tab-separated input

100%

Pandas DataFrame input

100%

Output no index no header

50%

100%

TSV output format

100%

network.tsv produced

100%

Correct import paths

100%

10%

Build a Consensus Regulatory Network from Single-Cell RNA-seq Data

Multi-seed robustness with shared Dask client

Criteria

Without context

With context

Main guard present

100%

Single shared client

100%

Three distinct seeds

100%

client_or_address used

100%

Client cleanup

100%

threads_per_worker=1

100%

Consensus logic

100%

TSV output format

100%

Output file produced

100%

GRNBoost2 algorithm

100%

16%

Validate GRN Inference Results Across Methods for a Benchmark Study

Algorithm comparison GRNBoost2 vs GENIE3

Criteria

Without context

With context

GRNBoost2 as primary

100%

GENIE3 for validation

100%

Same seed for both

100%

Main guard present

100%

Primary output no header/index

100%

Validation output no header/index

100%

Tab-separated outputs

100%

Overlap computed

100%

Comparison report written

100%

TF filtering used

100%

Repository: K-Dense-AI/claude-scientific-skills
Commit: b58ad7e

Evaluated: 27 days ago
Agent: Claude Code
Model: Claude Sonnet 4.6

Table of Contents

Identify Transcription Factor Targets in a Lung Cancer Dataset Build a Consensus Regulatory Network from Single-Cell RNA-seq Data Validate GRN Inference Results Across Methods for a Benchmark Study

Is this your skill?

If you maintain this skill, you can claim it as your own. Once claimed, you can manage eval scenarios, bundle related skills, attach documentation or rules, and ensure cross-agent compatibility.