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amr-detection
80 / 100 · Low risk
Fine to try.
By mdbabumiamssm/LLMs-Universal-Life-Science-and-Clinical-Skills- (GitHub) · other · 36 stars · scanned at commit fde6cd1
Works with any agent that supports SKILL.md skills.
What this skill can do
Runs commands on your computer
The author does not mention this.
Found in 18 places.
Show 15 more
- Skills/Genomics/Metagenomics/bioSkills/amr-detection/SKILL.md, line 87
for fasta in assemblies/*.fasta; do - Skills/Genomics/Metagenomics/bioSkills/amr-detection/SKILL.md, line 105
conda install -c bioconda resfinder - Skills/Genomics/Metagenomics/bioSkills/amr-detection/SKILL.md, line 113
python -m resfinder -ifa contigs.fasta -o resfinder_output \ - Skills/Genomics/Metagenomics/bioSkills/amr-detection/SKILL.md, line 126
python -m resfinder -ifq reads_1.fq reads_2.fq -o resfinder_output \ - Skills/Genomics/Metagenomics/bioSkills/amr-detection/SKILL.md, line 137
conda install -c bioconda rgi - Skills/Genomics/Metagenomics/bioSkills/amr-detection/SKILL.md, line 145
rgi main --input_sequence contigs.fasta --output_file rgi_output \ - Skills/Genomics/Metagenomics/bioSkills/amr-detection/SKILL.md, line 161
cat rgi_output.txt - Skills/Genomics/Metagenomics/bioSkills/amr-detection/SKILL.md, line 172
conda install -c bioconda abricate - Skills/Genomics/Metagenomics/bioSkills/amr-detection/SKILL.md, line 179
abricate --list - Skills/Genomics/Metagenomics/bioSkills/amr-detection/SKILL.md, line 187
abricate contigs.fasta > abricate_results.tsv - Skills/Genomics/Metagenomics/bioSkills/amr-detection/SKILL.md, line 203
abricate assemblies/*.fasta > all_results.tsv - Skills/Genomics/Metagenomics/bioSkills/amr-detection/SKILL.md, line 215
shortbred_quantify.py --markers amr_markers.faa \ - Skills/Genomics/Metagenomics/bioSkills/amr-detection/SKILL.md, line 225
groot index -m card.90 -i groot_index -p 8 - Skills/Genomics/Metagenomics/bioSkills/amr-detection/SKILL.md, line 236
set -euo pipefail - Skills/Genomics/Metagenomics/bioSkills/amr-detection/examples/batch_amr_screening.py, line 28
subprocess.run(cmd, check=True, capture_output=True)
Downloads and installs other software
The author does not mention this.
Found in 1 place.
Install
Paste this into your terminal. It downloads exactly the version we scanned, not whatever is newest.
if [ -e ~/.agents/skills/'amr-detection' ] || [ -L ~/.agents/skills/'amr-detection' ]; then echo 'A skill folder named amr-detection already exists — not replacing it' >&2; false; else d=$(mktemp -d) && git clone --quiet --filter=blob:none --no-checkout 'https://github.com/mdbabumiamssm/LLMs-Universal-Life-Science-and-Clinical-Skills-' "$d" && git -C "$d" checkout --quiet 'fde6cd1025d8a9300ad783b3d6696fa708a5cdb0' -- 'Skills/Genomics/Metagenomics/bioSkills/amr-detection' && mkdir -p ~/.agents/skills && cp -R "$d"/'Skills/Genomics/Metagenomics/bioSkills/amr-detection' ~/.agents/skills/'amr-detection' && rm -rf "$d"; fi
Codex reads ~/.agents/skills directly. For Claude Code, Cursor, Copilot, Gemini CLI, Antigravity or OpenCode, also link it. For Claude Code: ln -s ~/.agents/skills/'amr-detection' ~/.claude/skills/'amr-detection' (other agents: ~/.cursor/skills, ~/.copilot/skills, ~/.gemini/skills, ~/.gemini/config/skills, ~/.config/opencode/skills). Or install through the finder skill, which does both.
Badge for your README
The badge for mdbabumiamssm/LLMs-Universal-Life-Science-and-Clinical-Skills- shows the score of its lowest-scoring skill.

[](https://zalavijaysinh.github.io/skilltrust/repos/mdbabumiamssm/LLMs-Universal-Life-Science-and-Clinical-Skills-/)
Score history
| Date | Version | Score |
|---|
| 2026-11-13 | fde6cd1 | 80 |
| 2026-11-07 | 839c35a | 80 |