Live registry search

Results for “microbial-genomes”

Exact name and slug matches are checked against the live registry before ranked alternatives.

Clear search

Decision filters

Choose by scenario, quality, and trust signals.

Use casePlatform fitQuality tierTrust profileSafety gateGitHub adoption

Showing 1-9 of 9 ranked candidates matching "microbial-genomes"

Best blend of relevance, quality, freshness, and verified outcomes

Drep

NEEDS REVIEW · 54TRUST · 70SAFE · EXPERIMENTALCODING

Rapid comparison and dereplication of genomes

$ npx skills add MrOlm/drep

347 stars40 quality70 trustExperimental10mo since pushNeeds review

QualityInspect the repository carefully before adding it to an agent workflow.

TrustPotentially useful, but at least one trust signal needs human inspection.Review: License is unclear

Safety gateSparse or mixed signals. Useful for discovery, but not for autonomous installation.

Scenario GitHub automation · I need my agent to triage GitHub issues, review pull requests, and summarize repository changes.

CLI + Codex · 4 targets

pythonbioinformatics

by MrOlmDetailsQuick view

Bakta

PROMISING · 69TRUST · 77SAFE · REVIEWEDCODING

Rapid & standardized annotation of bacterial genomes, MAGs & plasmids

$ npx skills add oschwengers/bakta

652 stars46 quality77 trustReviewed with permission notes3mo since pushNeeds review

QualityUseful candidate, but compare it with alternatives before adopting.

TrustGood trust signals with a few areas worth checking before rollout.Review: Quality score needs review

Safety gateUsable candidate, but the agent should surface permission and audit notes before installation.

Scenario GitHub automation · I need my agent to triage GitHub issues, review pull requests, and summarize repository changes.

CLI + Codex · 4 targets

pythonbioinformatics

by oschwengersDetailsQuick view

Ncbi Genome Download

VERIFIEDEXCELLENT · 86TRUST · 82SAFE · REVIEWEDCODING

Scripts to download genomes from the NCBI FTP servers

$ npx skills add kblin/ncbi-genome-download

1.1K stars56 quality82 trustReviewed with permission notes5mo since pushSafe to try

QualityHigh-confidence pick with strong adoption and healthy maintenance signals.

TrustGood trust signals with a few areas worth checking before rollout.Review: Documentation summary is thin

Safety gateUsable candidate, but the agent should surface permission and audit notes before installation.

Scenario GitHub automation · I need my agent to triage GitHub issues, review pull requests, and summarize repository changes.

CLI + Codex · 4 targets

pythonbioinformatics

by kblinDetailsQuick view

DRAM

STRONG · 76TRUST · 80SAFE · REVIEWEDCODING

Distilled and Refined Annotation of Metabolism: A tool for the annotation and curation of function for microbial and viral genomes

$ npx skills add WrightonLabCSU/DRAM

335 stars51 quality80 trustReviewed30d since pushSafe to try

QualitySolid option that is likely worth shortlisting for production workflows.

TrustGood trust signals with a few areas worth checking before rollout.Review: Quality score needs review

Safety gateGood audit and safety signals with no high-risk permission hints in public metadata.

Scenario GitHub automation · I need my agent to triage GitHub issues, review pull requests, and summarize repository changes.

CLI + Codex · 4 targets

pythonbioinformatics

by WrightonLabCSUDetailsQuick view

PPanGGOLiN

PROMISING · 65TRUST · 73SAFE · REVIEWEDCODING

Build a partitioned pangenome graph from microbial genomes

$ npx skills add labgem/PPanGGOLiN

303 stars48 quality73 trustReviewed with permission notes3mo since pushNeeds review

QualityUseful candidate, but compare it with alternatives before adopting.

TrustGood trust signals with a few areas worth checking before rollout.Review: License is unclear

Safety gateUsable candidate, but the agent should surface permission and audit notes before installation.

Scenario GitHub automation · I need my agent to triage GitHub issues, review pull requests, and summarize repository changes.

CLI + Codex · 4 targets

pythonbioinformatics

by labgemDetailsQuick view

Tgv

STRONG · 72TRUST · 73SAFE · EXPERIMENTALCODING

Explore genomes in the terminal. Light, blazing fast 🚀, vim-motion.

$ npx skills add zeqianli/tgv

477 stars49 quality73 trustExperimental2mo since pushNeeds review

QualitySolid option that is likely worth shortlisting for production workflows.

TrustGood trust signals with a few areas worth checking before rollout.Review: Quality score needs review

Safety gateSparse or mixed signals. Useful for discovery, but not for autonomous installation.

Scenario GitHub automation · I need my agent to triage GitHub issues, review pull requests, and summarize repository changes.

CLI + Codex · 4 targets

rustbioinformatics

by zeqianliDetailsQuick view

GTDBTk

PROMISING · 69TRUST · 79SAFE · REVIEWEDCODING

GTDB-Tk: a toolkit for assigning objective taxonomic classifications to bacterial and archaeal genomes.

$ npx skills add Ecogenomics/GTDBTk

607 stars46 quality79 trustReviewed with permission notes3mo since pushNeeds review

QualityUseful candidate, but compare it with alternatives before adopting.

TrustGood trust signals with a few areas worth checking before rollout.Review: Quality score needs review

Safety gateUsable candidate, but the agent should surface permission and audit notes before installation.

Scenario GitHub automation · I need my agent to triage GitHub issues, review pull requests, and summarize repository changes.

CLI + Codex · 4 targets

pythonbioinformatics

by EcogenomicsDetailsQuick view

Abyss

PROMISING · 61TRUST · 72SAFE · REVIEWEDCODING

:microscope: Assemble large genomes using short reads

$ npx skills add BirolLab/abyss

329 stars44 quality72 trustReviewed with permission notes4mo since pushNeeds review

QualityUseful candidate, but compare it with alternatives before adopting.

TrustGood trust signals with a few areas worth checking before rollout.Review: License is unclear

Safety gateUsable candidate, but the agent should surface permission and audit notes before installation.

Scenario GitHub automation · I need my agent to triage GitHub issues, review pull requests, and summarize repository changes.

CLI + Codex · 4 targets

c++bioinformatics

by BirolLabDetailsQuick view

Miniprot

PROMISING · 59TRUST · 73SAFE · REVIEWEDCODING

Align proteins to genomes with splicing and frameshift

$ npx skills add lh3/miniprot

405 stars41 quality73 trustReviewed with permission notes8mo since pushNeeds review

QualityUseful candidate, but compare it with alternatives before adopting.

TrustGood trust signals with a few areas worth checking before rollout.Review: Quality score needs review

Safety gateUsable candidate, but the agent should surface permission and audit notes before installation.

Scenario GitHub automation · I need my agent to triage GitHub issues, review pull requests, and summarize repository changes.

CLI + Codex · 4 targets

cbioinformatics

by lh3DetailsQuick view

Live registry search

Results for “microbial-genomes”

Exact name and slug matches are checked against the live registry before ranked alternatives.

Clear search

Decision filters

Choose by scenario, quality, and trust signals.

Use casePlatform fitQuality tierTrust profileSafety gateGitHub adoption

Showing 1-9 of 9 ranked candidates matching "microbial-genomes"

Best blend of relevance, quality, freshness, and verified outcomes

Drep

NEEDS REVIEW · 54TRUST · 70SAFE · EXPERIMENTALCODING

Rapid comparison and dereplication of genomes

$ npx skills add MrOlm/drep

347 stars40 quality70 trustExperimental10mo since pushNeeds review

QualityInspect the repository carefully before adding it to an agent workflow.

TrustPotentially useful, but at least one trust signal needs human inspection.Review: License is unclear

Safety gateSparse or mixed signals. Useful for discovery, but not for autonomous installation.

Scenario GitHub automation · I need my agent to triage GitHub issues, review pull requests, and summarize repository changes.

CLI + Codex · 4 targets

pythonbioinformatics

by MrOlmDetailsQuick view

Bakta

PROMISING · 69TRUST · 77SAFE · REVIEWEDCODING

Rapid & standardized annotation of bacterial genomes, MAGs & plasmids

$ npx skills add oschwengers/bakta

652 stars46 quality77 trustReviewed with permission notes3mo since pushNeeds review

QualityUseful candidate, but compare it with alternatives before adopting.

TrustGood trust signals with a few areas worth checking before rollout.Review: Quality score needs review

Safety gateUsable candidate, but the agent should surface permission and audit notes before installation.

Scenario GitHub automation · I need my agent to triage GitHub issues, review pull requests, and summarize repository changes.

CLI + Codex · 4 targets

pythonbioinformatics

by oschwengersDetailsQuick view

Ncbi Genome Download

VERIFIEDEXCELLENT · 86TRUST · 82SAFE · REVIEWEDCODING

Scripts to download genomes from the NCBI FTP servers

$ npx skills add kblin/ncbi-genome-download

1.1K stars56 quality82 trustReviewed with permission notes5mo since pushSafe to try

QualityHigh-confidence pick with strong adoption and healthy maintenance signals.

TrustGood trust signals with a few areas worth checking before rollout.Review: Documentation summary is thin

Safety gateUsable candidate, but the agent should surface permission and audit notes before installation.

Scenario GitHub automation · I need my agent to triage GitHub issues, review pull requests, and summarize repository changes.

CLI + Codex · 4 targets

pythonbioinformatics

by kblinDetailsQuick view

DRAM

STRONG · 76TRUST · 80SAFE · REVIEWEDCODING

Distilled and Refined Annotation of Metabolism: A tool for the annotation and curation of function for microbial and viral genomes

$ npx skills add WrightonLabCSU/DRAM

335 stars51 quality80 trustReviewed30d since pushSafe to try

QualitySolid option that is likely worth shortlisting for production workflows.

TrustGood trust signals with a few areas worth checking before rollout.Review: Quality score needs review

Safety gateGood audit and safety signals with no high-risk permission hints in public metadata.

Scenario GitHub automation · I need my agent to triage GitHub issues, review pull requests, and summarize repository changes.

CLI + Codex · 4 targets

pythonbioinformatics

by WrightonLabCSUDetailsQuick view

PPanGGOLiN

PROMISING · 65TRUST · 73SAFE · REVIEWEDCODING

Build a partitioned pangenome graph from microbial genomes

$ npx skills add labgem/PPanGGOLiN

303 stars48 quality73 trustReviewed with permission notes3mo since pushNeeds review

QualityUseful candidate, but compare it with alternatives before adopting.

TrustGood trust signals with a few areas worth checking before rollout.Review: License is unclear

Safety gateUsable candidate, but the agent should surface permission and audit notes before installation.

Scenario GitHub automation · I need my agent to triage GitHub issues, review pull requests, and summarize repository changes.

CLI + Codex · 4 targets

pythonbioinformatics

by labgemDetailsQuick view

Tgv

STRONG · 72TRUST · 73SAFE · EXPERIMENTALCODING

Explore genomes in the terminal. Light, blazing fast 🚀, vim-motion.

$ npx skills add zeqianli/tgv

477 stars49 quality73 trustExperimental2mo since pushNeeds review

QualitySolid option that is likely worth shortlisting for production workflows.

TrustGood trust signals with a few areas worth checking before rollout.Review: Quality score needs review

Safety gateSparse or mixed signals. Useful for discovery, but not for autonomous installation.

Scenario GitHub automation · I need my agent to triage GitHub issues, review pull requests, and summarize repository changes.

CLI + Codex · 4 targets

rustbioinformatics

by zeqianliDetailsQuick view

GTDBTk

PROMISING · 69TRUST · 79SAFE · REVIEWEDCODING

GTDB-Tk: a toolkit for assigning objective taxonomic classifications to bacterial and archaeal genomes.

$ npx skills add Ecogenomics/GTDBTk

607 stars46 quality79 trustReviewed with permission notes3mo since pushNeeds review

QualityUseful candidate, but compare it with alternatives before adopting.

TrustGood trust signals with a few areas worth checking before rollout.Review: Quality score needs review

Safety gateUsable candidate, but the agent should surface permission and audit notes before installation.

Scenario GitHub automation · I need my agent to triage GitHub issues, review pull requests, and summarize repository changes.

CLI + Codex · 4 targets

pythonbioinformatics

by EcogenomicsDetailsQuick view

Abyss

PROMISING · 61TRUST · 72SAFE · REVIEWEDCODING

:microscope: Assemble large genomes using short reads

$ npx skills add BirolLab/abyss

329 stars44 quality72 trustReviewed with permission notes4mo since pushNeeds review

QualityUseful candidate, but compare it with alternatives before adopting.

TrustGood trust signals with a few areas worth checking before rollout.Review: License is unclear

Safety gateUsable candidate, but the agent should surface permission and audit notes before installation.

Scenario GitHub automation · I need my agent to triage GitHub issues, review pull requests, and summarize repository changes.

CLI + Codex · 4 targets

c++bioinformatics

by BirolLabDetailsQuick view

Miniprot

PROMISING · 59TRUST · 73SAFE · REVIEWEDCODING

Align proteins to genomes with splicing and frameshift

$ npx skills add lh3/miniprot

405 stars41 quality73 trustReviewed with permission notes8mo since pushNeeds review

QualityUseful candidate, but compare it with alternatives before adopting.

TrustGood trust signals with a few areas worth checking before rollout.Review: Quality score needs review

Safety gateUsable candidate, but the agent should surface permission and audit notes before installation.

Scenario GitHub automation · I need my agent to triage GitHub issues, review pull requests, and summarize repository changes.

CLI + Codex · 4 targets

cbioinformatics

by lh3DetailsQuick view

AI Agent Skills Directory

Results for “microbial-genomes”

Choose by scenario, quality, and trust signals.

Drep

Bakta

Ncbi Genome Download

DRAM

PPanGGOLiN

Tgv

GTDBTk

Abyss

Miniprot

AI Agent Skills Directory

Results for “microbial-genomes”

Choose by scenario, quality, and trust signals.

Drep

Bakta

Ncbi Genome Download

DRAM

PPanGGOLiN

Tgv

GTDBTk

Abyss

Miniprot

AI Agent Skills Directory

Results for “microbial-genomes”

Choose by scenario, quality, and trust signals.

Drep

Bakta

Ncbi Genome Download

DRAM

PPanGGOLiN

Tgv

GTDBTk

Abyss

Miniprot