Hugging Science
K-Dense-AI/scientific-agent-skills
Discovers and evaluates scientific datasets, models, methodology posts, and Spaces through the Hugging Science catalog.
Provides R wrappers of several on-target and off-target scoring methods for CRISPR guide RNAs (gRNAs).
Install Bioconductor Crisprscore
$ npx skills add bioMate-AI/biomate-bioconductor-kb --skill bioconductor-crisprscore -a claude-codeProject install by default; add -g for ~/.claude/skills/.
$ gh skill install bioMate-AI/biomate-bioconductor-kb bioconductor-crisprscore --agent claude-codeProject scope by default; add --scope user for a personal install. Needs GitHub CLI 2.90.0 or later (public preview).
$ git clone --depth 1 https://github.com/bioMate-AI/biomate-bioconductor-kb.git skills-src && mkdir -p .claude/skills && cp -r skills-src/skills/transcriptomics/crisprscore .claude/skills/bioconductor-crisprscore && rm -rf skills-srcUse ~/.claude/skills/ instead of .claude/skills for a personal install. The folder must contain SKILL.md.
Claude Code skills documentation · loads skills from .claude/skills/
Install the "bioconductor-crisprscore" agent skill from https://github.com/bioMate-AI/biomate-bioconductor-kb/tree/main/skills/transcriptomics/crisprscore into .claude/skills/bioconductor-crisprscore/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "bioconductor-crisprscore", then confirm the skill loads.Claude Code copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$skill-installer install https://github.com/bioMate-AI/biomate-bioconductor-kb/tree/main/skills/transcriptomics/crisprscoreType this inside Codex. $skill-installer <name> installs a curated skill from openai/skills. The installer writes to $CODEX_HOME/skills (default ~/.codex/skills). Restart Codex if the skill does not show up.
$ npx skills add bioMate-AI/biomate-bioconductor-kb --skill bioconductor-crisprscore -a codexProject install goes to .agents/skills/; add -g for ~/.codex/skills/.
$ gh skill install bioMate-AI/biomate-bioconductor-kb bioconductor-crisprscore --agent codexProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/bioMate-AI/biomate-bioconductor-kb.git skills-src && mkdir -p .agents/skills && cp -r skills-src/skills/transcriptomics/crisprscore .agents/skills/bioconductor-crisprscore && rm -rf skills-srcUse ~/.agents/skills/ instead of .agents/skills for a personal install.
Codex skills documentation · loads skills from .agents/skills/
Install the "bioconductor-crisprscore" agent skill from https://github.com/bioMate-AI/biomate-bioconductor-kb/tree/main/skills/transcriptomics/crisprscore into .agents/skills/bioconductor-crisprscore/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "bioconductor-crisprscore", then confirm the skill loads.Codex copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$ npx skills add bioMate-AI/biomate-bioconductor-kb --skill bioconductor-crisprscore -a cursorProject install goes to .agents/skills/; add -g for ~/.cursor/skills/.
$ gh skill install bioMate-AI/biomate-bioconductor-kb bioconductor-crisprscore --agent cursorProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/bioMate-AI/biomate-bioconductor-kb.git skills-src && mkdir -p .cursor/skills && cp -r skills-src/skills/transcriptomics/crisprscore .cursor/skills/bioconductor-crisprscore && rm -rf skills-srcUse ~/.cursor/skills/ instead of .cursor/skills for a personal install.
Cursor skills documentation · loads skills from .cursor/skills/, .agents/skills/, .claude/skills/, .codex/skills/
Install the "bioconductor-crisprscore" agent skill from https://github.com/bioMate-AI/biomate-bioconductor-kb/tree/main/skills/transcriptomics/crisprscore into .cursor/skills/bioconductor-crisprscore/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "bioconductor-crisprscore", then confirm the skill loads.Cursor copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$ gemini skills install https://github.com/bioMate-AI/biomate-bioconductor-kb.git --path skills/transcriptomics/crisprscore--scope user (default) or --scope workspace; --path is the subfolder of the repo that holds the skill; --consent skips the security confirmation prompt.
$ npx skills add bioMate-AI/biomate-bioconductor-kb --skill bioconductor-crisprscore -a gemini-cliProject install goes to .agents/skills/; add -g for ~/.gemini/skills/.
$ gh skill install bioMate-AI/biomate-bioconductor-kb bioconductor-crisprscore --agent gemini-cliProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/bioMate-AI/biomate-bioconductor-kb.git skills-src && mkdir -p .gemini/skills && cp -r skills-src/skills/transcriptomics/crisprscore .gemini/skills/bioconductor-crisprscore && rm -rf skills-srcUse ~/.gemini/skills/ instead of .gemini/skills for a personal install, then run /skills reload.
Gemini CLI skills documentation · loads skills from .gemini/skills/, .agents/skills/
Install the "bioconductor-crisprscore" agent skill from https://github.com/bioMate-AI/biomate-bioconductor-kb/tree/main/skills/transcriptomics/crisprscore into .gemini/skills/bioconductor-crisprscore/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "bioconductor-crisprscore", then confirm the skill loads.Gemini CLI copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$ gh skill install bioMate-AI/biomate-bioconductor-kb bioconductor-crisprscoreInstalls for Copilot at project scope by default; add --scope user for a personal install. Preview a skill first with gh skill preview. Needs GitHub CLI 2.90.0 or later (public preview).
$ npx skills add bioMate-AI/biomate-bioconductor-kb --skill bioconductor-crisprscore -a github-copilotProject install goes to .agents/skills/; add -g for ~/.copilot/skills/.
$ git clone --depth 1 https://github.com/bioMate-AI/biomate-bioconductor-kb.git skills-src && mkdir -p .github/skills && cp -r skills-src/skills/transcriptomics/crisprscore .github/skills/bioconductor-crisprscore && rm -rf skills-srcUse ~/.copilot/skills/ instead of .github/skills for a personal install. Commit .github/skills so cloud agent and code review can use it.
GitHub Copilot skills documentation · loads skills from .github/skills/, .claude/skills/, .agents/skills/
Install the "bioconductor-crisprscore" agent skill from https://github.com/bioMate-AI/biomate-bioconductor-kb/tree/main/skills/transcriptomics/crisprscore into .github/skills/bioconductor-crisprscore/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "bioconductor-crisprscore", then confirm the skill loads.GitHub Copilot copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$ npx skills add bioMate-AI/biomate-bioconductor-kb --skill bioconductor-crisprscore -a opencodeOpenCode documents no install command of its own. Project install goes to .agents/skills/; add -g for ~/.config/opencode/skills/.
$ gh skill install bioMate-AI/biomate-bioconductor-kb bioconductor-crisprscore --agent opencodeProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/bioMate-AI/biomate-bioconductor-kb.git skills-src && mkdir -p .opencode/skills && cp -r skills-src/skills/transcriptomics/crisprscore .opencode/skills/bioconductor-crisprscore && rm -rf skills-srcUse ~/.config/opencode/skills/ instead of .opencode/skills for a personal install.
OpenCode skills documentation · loads skills from .opencode/skills/, .claude/skills/, .agents/skills/
Install the "bioconductor-crisprscore" agent skill from https://github.com/bioMate-AI/biomate-bioconductor-kb/tree/main/skills/transcriptomics/crisprscore into .opencode/skills/bioconductor-crisprscore/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "bioconductor-crisprscore", then confirm the skill loads.OpenCode copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
Facts
- Skill name
bioconductor-crisprscore- GitHub stars
- 804
- Token cost
- ~1.9k tokens
- SKILL.md length
- 587 words
- Files
- 1
- Skills in repo
- 112
- Repo updated
- First seen
- Licence
- Custom licence
At a glance
Provides R wrappers of several on-target and off-target scoring methods for CRISPR guide RNAs (gRNAs).
- Tasks that involve Physical and earth sciences
- SKILL.md covers Workflows, When to Use, When NOT to Use and Data Requirements, plus 6 more sections
- Instructions only: no scripts, shell commands, URLs or credentials in SKILL.md
- Tasks that involve Bioinformatics
What it does
Bioconductor Crisprscore is an agent skill from bioMate-AI/biomate-bioconductor-kb. Provides R wrappers of several on-target and off-target scoring methods for CRISPR guide RNAs (gRNAs). The following nucleases are supported: SpCas9, AsCas12a, enAsCas12a, and RfxCas13d (CasRx). The available on-target cutting efficiency scoring methods are RuleSet1, Azimuth, DeepHF, DeepCpf1, enPAM+GB, and CRISPRscan. Both the CFD and MIT scoring methods are available for off-target specificity prediction. The package also provides a Lindel-derived score to predict the probability of a gRNA to
Its SKILL.md is about 1.9k tokens, which your agent loads only when the skill is triggered. It is a single SKILL.md file with no bundled scripts.
It sits in Research & Science, covering Physical and earth sciences and Bioinformatics. The repository describes itself as: BioMate-KB Bioconductor Skills — 200 packages (top 100 by downloads + 100 rising stars) as vignette-grounded Claude/agent skills, with per-package workflow recipes.
When your agent uses it
- Tasks that involve Physical and earth sciences
- Tasks that involve Bioinformatics
Example prompts
- “Use the bioconductor-crisprscore skill to provide R wrappers of several on-target and off-target scoring methods for CRISPR guide RNAs (gRNAs)”
- “/bioconductor-crisprscore”
Requirements
- Python 3
What it can do on your machine
Read from SKILL.md and the folder at commit c9bd4d8. It shows what the files ask for, not the result of running them.
Tool permissions
Pre-approves nothing: there is no allowed-tools line, so your agent's usual permission prompts apply.
From allowed-tools in the SKILL.md frontmatter.
Runs code
No scripts in the folder and no shell commands in SKILL.md (its code samples are r).
From the folder's file list and the shell code blocks in SKILL.md.
Network
No URLs in SKILL.md.
From URLs in SKILL.md, links to its own repository left out.
Credentials
Names no API keys, tokens, secrets or passwords.
From names ending in _API_KEY, _TOKEN, _SECRET, _KEY or _PASSWORD in SKILL.md.
Context cost
Bioconductor Crisprscore loads about 1.9k tokens when it runs. Until then it costs about 131 tokens; SKILL.md has 587 words of instructions outside code blocks.
Estimates: characters ÷ 4, the usual rule of thumb; real counts depend on the model's tokenizer. Scripts and assets cost tokens only if the agent reads them.
Safety
Auto-check passed
The automated check found no risky patterns in SKILL.md.
Automated static check — not a guarantee. Review scripts before installing. It scans the text of SKILL.md for risky patterns (piping downloads into a shell, reading credential files, hidden Unicode, destructive commands); files beside SKILL.md are not scanned.
SKILL.md
Its licence (Custom licence) doesn't allow us to republish the file, so here is its outline and opening line. It has 587 words (~1,856 tokens).
“Inputs: A character vector of 20bp spacer sequences. Outputs: A numeric vector of CRISPRater on-target efficiency scores.”
- name
- bioconductor-crisprscore
- when_to_use
- Use when: Provides R wrappers of several on-target and off-target scoring methods for CRISPR guide RNAs (gRNAs). Not for: Requires R ≥ 4.1 and Bioconductor ≥…
- user-invocable
- false
Files
Just SKILL.md in skills/transcriptomics/crisprscore of bioMate-AI/biomate-bioconductor-kb.
Open the folder on GitHubat commit c9bd4d8
Compare with similar skills
Bioconductor Crisprscore next to the 5 skills that share the most tags, products or categories with it. Stars are the repository's; “used in” counts other GitHub owners with a copy.
| Skill | Stars | Used in | Tokens | Auto-check | Licence | Repo updated |
|---|---|---|---|---|---|---|
| Bioconductor Crisprscore this skillbioMate-AI/biomate-bioconductor-kb | 804 | — | ~1.9k | Automated safety check: Pass | Custom licence | |
| Hugging ScienceK-Dense-AI/scientific-agent-skills | 48k | 1 repos | ~2.9k | Automated safety check: Notes | MIT | |
| Bio Genome Engineering Off Target PredictionFreedomIntelligence/OpenClaw-Medical-Skills | 3.1k | 1 repos | ~2k | Automated safety check: Pass | None | |
| Bio Temporal Genomics Periodicity DetectionGPTomics/bioSkills | 1.2k | 1 repos | ~5.3k | Automated safety check: Pass | MIT | |
| Alphagenome Single Variant Analysisgoogle-deepmind/science-skills | 3.2k | 2 repos | ~3k | Automated safety check: Notes | Apache-2.0 | |
| AstropyzLanqing/codex-claude-academic-skills | 4.7k | 13 repos | ~2.9k | Automated safety check: Pass | BSD-3-Clause |
Similar skills
Bio Genome Engineering Off Target Prediction
FreedomIntelligence/OpenClaw-Medical-Skills
Predict CRISPR off-target sites using Cas-OFFinder and CFD scoring algorithms.
Bio Temporal Genomics Periodicity Detection
GPTomics/bioSkills
Discovers a periodic signal of UNKNOWN period in time-series omics data and puts a defensible significance on it, especially when sampling is IRREGULAR (dropped timepoints, pooled harvests) so…
Alphagenome Single Variant Analysis
google-deepmind/science-skills
Analyzes genetic variant effects on gene expression (RNA-seq), chromatin accessibility (DNASE), histone marks (ChIP), and transcription factors using the AlphaGenome API.
Astropy
zLanqing/codex-claude-academic-skills
Comprehensive Python library for astronomy and astrophysics.
13C Metabolic Flux Analysis
K-Dense-AI/scientific-agent-skills
Estimates reaction fluxes inside cells from steady-state carbon-13 labeling data with a bundled mfapy-based solver, and reports which fluxes the data pin down.
More from bioMate-AI/biomate-bioconductor-kb
All 112 skills in this repoBioconductor Annotationhub
bioMate-AI/biomate-bioconductor-kb
This package provides a client for the Bioconductor AnnotationHub web resource.
Bioconductor Asurat
bioMate-AI/biomate-bioconductor-kb
ASURAT is a software for single-cell data analysis. An agent skill from bioMate-AI/biomate-bioconductor-kb.
Bioconductor Awst
bioMate-AI/biomate-bioconductor-kb
We propose an Asymmetric Within-Sample Transformation (AWST) to regularize RNA-seq read counts and reduce the effect of noise on the classification of samples.
Bioconductor Bandle
bioMate-AI/biomate-bioconductor-kb
The Bandle package enables the analysis and visualisation of differential localisation experiments using mass-spectrometry data.
Bioconductor Batchelor
bioMate-AI/biomate-bioconductor-kb
Implements a variety of methods for batch correction of single-cell (RNA sequencing) data.
Bioconductor Beer
bioMate-AI/biomate-bioconductor-kb
BEER implements a Bayesian model for analyzing phage-immunoprecipitation sequencing (PhIP-seq) data.
Related
Categories
Questions about Bioconductor Crisprscore
What does Bioconductor Crisprscore do?
Provides R wrappers of several on-target and off-target scoring methods for CRISPR guide RNAs (gRNAs). Bioconductor Crisprscore is an agent skill from bioMate-AI/biomate-bioconductor-kb. Provides R wrappers of several on-target and off-target scoring methods for CRISPR guide RNAs (gRNAs).
When should I use Bioconductor Crisprscore?
Bioconductor Crisprscore fits situations like: tasks that involve Physical and earth sciences; tasks that involve Bioinformatics.
How do I install Bioconductor Crisprscore in Claude Code?
Run `npx skills add bioMate-AI/biomate-bioconductor-kb --skill bioconductor-crisprscore -a claude-code`. Or copy the skill folder (skills/transcriptomics/crisprscore in bioMate-AI/biomate-bioconductor-kb) into .claude/skills/bioconductor-crisprscore in your project. Claude Code loads it when a task matches its description.
How do I install Bioconductor Crisprscore in Codex?
Run `npx skills add bioMate-AI/biomate-bioconductor-kb --skill bioconductor-crisprscore -a codex`. Or copy the skill folder (skills/transcriptomics/crisprscore in bioMate-AI/biomate-bioconductor-kb) into .agents/skills/bioconductor-crisprscore in your project. Codex loads it when a task matches its description.
Can I use Bioconductor Crisprscore in Cursor, Gemini CLI or GitHub Copilot?
Cursor, Gemini CLI, GitHub Copilot and OpenCode also load SKILL.md folders. With the skills CLI, run `npx skills add bioMate-AI/biomate-bioconductor-kb --skill bioconductor-crisprscore -a cursor` (or -a gemini-cli, github-copilot or opencode for the others). To copy it by hand, put the folder in .cursor/skills/bioconductor-crisprscore, .gemini/skills/bioconductor-crisprscore, .github/skills/bioconductor-crisprscore and .opencode/skills/bioconductor-crisprscore in your project.
What does Bioconductor Crisprscore need to run?
SKILL.md names no scripts, command-line tools or credentials: Bioconductor Crisprscore is instructions for the agent only. Our summary lists: Python 3.
Does Bioconductor Crisprscore access the network?
SKILL.md contains no URLs. Any network use would come from the scripts or tools the agent runs. This is read from the text; nothing was executed.
Is Bioconductor Crisprscore safe to install?
Our automated static check of SKILL.md found no risky patterns, such as piping downloads into a shell, reading credential files or hidden Unicode. It is not a guarantee. Review the folder before installing.
What licence does Bioconductor Crisprscore use?
Bioconductor Crisprscore has a licence file (the repository's licence) that doesn't match a standard licence. Read it on GitHub before reusing the skill.
How many tokens does Bioconductor Crisprscore use?
About 1.9k tokens (SKILL.md is roughly 7.4k characters). Agents keep only the skill's name and description in context until a task matches; then they load SKILL.md in full.
What are the alternatives to Bioconductor Crisprscore?
Skills that share tags, products or a category with Bioconductor Crisprscore: Hugging Science (K-Dense-AI/scientific-agent-skills, 48k stars), Bio Genome Engineering Off Target Prediction (FreedomIntelligence/OpenClaw-Medical-Skills, 3.1k stars), Bio Temporal Genomics Periodicity Detection (GPTomics/bioSkills, 1.2k stars) and Alphagenome Single Variant Analysis (google-deepmind/science-skills, 3.2k stars). The comparison table on this page puts their stars, adoption, token cost, safety result and licence side by side.
Who maintains Bioconductor Crisprscore?
bioMate-AI (a GitHub organization) maintains it in bioMate-AI/biomate-bioconductor-kb, which has 804 GitHub stars. The repository holds 112 skills in this directory. The repository was last updated on June 20, 2026.
Source: bioMate-AI/biomate-bioconductor-kb on GitHub. Facts on this page come from the repository at the commit we read; the author's words are quoted as theirs.