Tools & Automation

CLI tools, utilities, converters, workflow automation, and productivity helpers

skills in category: 47,593
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Showing 14,617–14,640 of 47,593 skills

Boltz2 Binding AffinityAPredict protein-ligand binding affinity using Boltz-2 model to assess molecular interactions and binding probability for drug discovery.toolspythonapiVotes: 0GitHub stars: 170
Atc Drug ClassificationAATC Drug Classification Lookup - Look up drug in ATC classification: ChEMBL ATC class, FDA drug info, PubChem compound, and mechanism of action. Use this skill for pharmacology tasks involving get atc class by level5 get mechanism of action by drug name get compound by name get drug by name. Combines 4 tools from 3 SCP server(s).toolspythonapiVotes: 0GitHub stars: 170
Antibody Drug DevelopmentAAntibody Drug Development - Develop antibody drug: target protein analysis, biotherapeutic lookup, protein properties, and interaction prediction. Use this skill for biologics tasks involving get uniprotkb entry by accession get biotherapeutic by name ComputeProtPara ComputeHydrophilicity. Combines 4 tools from 3 SCP server(s).toolspythonapiVotes: 0GitHub stars: 170
Alanine Scanning PipelineAAlanine Scanning Mutagenesis Pipeline - Alanine scanning: design scan, compute properties for each mutant, predict interactions, and compare. Use this skill for protein biochemistry tasks involving AlanineScanningDesigner ComputeProtPara PredictDrugTargetInteraction calculate protein sequence properties. Combines 4 tools from 3 SCP server(s).toolspythonapiVotes: 0GitHub stars: 170
Affinity MaturationAAffinity Maturation Pipeline - Affinity maturation: compute binding affinity, predict mutations, compute hydrophilicity, and predict drug-target interaction. Use this skill for antibody engineering tasks involving ComputeAffinityCalculator zero shot sequence prediction ComputeHydrophilicity PredictDrugTargetInteraction. Combines 4 tools from 3 SCP server(s).toolspythonapiVotes: 0GitHub stars: 170
Admet Druglikeness ReportAADMET & Drug-Likeness Report - Generate comprehensive ADMET and drug-likeness report: molecular properties, H-bond analysis, hydrophobicity, topology, and ADMET prediction. Use this skill for medicinal chemistry tasks involving calculate mol basic info calculate mol hbond calculate mol hydrophobicity calculate mol topology pred molecule admet. Combines 5 tools from 2 SCP server(s).toolspythonapiVotes: 0GitHub stars: 170
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Virus GenomicsAVirus Genomics Analysis - Analyze virus genomics: NCBI virus dataset, annotation, taxonomy, and literature search. Use this skill for virology tasks involving get virus dataset report get virus annotation report get taxonomy search literature. Combines 4 tools from 2 SCP server(s).toolspythonapiVotes: 0GitHub stars: 170
Variant PathogenicityAVariant Pathogenicity Assessment - Assess variant pathogenicity: Ensembl VEP prediction, ClinVar lookup, variation details, and gene phenotype associations. Use this skill for clinical genetics tasks involving get vep hgvs clinvar search get variation get phenotype gene. Combines 4 tools from 2 SCP server(s).toolspythonapiVotes: 0GitHub stars: 170
Ucsc Genome ExplorationAUCSC Genome Browser Exploration - Explore genome via UCSC: list genomes, list tracks, get sequence, get track data, and cytoband info. Use this skill for genomics tasks involving list genomes list tracks get sequence get track data get cytoband. Combines 5 tools from 1 SCP server(s).toolspythonapiVotes: 0GitHub stars: 170
Transcriptome AnalysisATranscriptome Analysis Pipeline - Analyze transcriptome: Ensembl transcript lookup, sequence retrieval, haplotype analysis, and UCSC track data. Use this skill for transcriptomics tasks involving get lookup id get sequence id get transcript haplotypes get track data. Combines 4 tools from 2 SCP server(s).toolspythonapiVotes: 0GitHub stars: 170
Tissue Specific AnalysisATissue-Specific Expression Analysis - Analyze tissue-specific expression: ChEMBL tissue data, TCGA cancer expression, Ensembl gene info, and NCBI gene data. Use this skill for tissue biology tasks involving get tissue by id get gene expression across cancers get lookup symbol get gene metadata by gene name. Combines 4 tools from 4 SCP server(s).toolspythonexpressVotes: 0GitHub stars: 170
Snp Functional AnalysisASNP Functional Impact Analysis - Analyze SNP function: VEP prediction, variation details, phenotype association, and literature evidence. Use this skill for functional genomics tasks involving get vep id get variation get phenotype accession pubmed search. Combines 4 tools from 2 SCP server(s).toolspythonapiVotes: 0GitHub stars: 170
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Regulatory Region AnalysisARegulatory Region Analysis - Analyze regulatory regions: get overlapping features, binding matrix, sequence, and phenotype associations. Use this skill for epigenomics tasks involving get overlap region get species binding matrix get sequence get phenotype region. Combines 4 tools from 2 SCP server(s).toolspythonapiVotes: 0GitHub stars: 170
Rare Disease GeneticsARare Disease Genetic Analysis - Analyze rare disease genetics: Monarch phenotype-disease mapping, ClinVar variants, NCBI gene data, and OpenTargets. Use this skill for rare disease genetics tasks involving get HPO ID by phenotype get joint associated diseases by HPO ID list clinvar search get associated targets by disease efoId. Combines 4 tools from 3 SCP server(s).toolspythonapiVotes: 0GitHub stars: 170
Population GeneticsAPopulation Genetics Analysis - Analyze population genetics: Ensembl variation populations, linkage disequilibrium, and variant frequency data. Use this skill for population genetics tasks involving get info variation populations get ld get variation get variant recoder. Combines 4 tools from 1 SCP server(s).toolspythonapiVotes: 0GitHub stars: 170
Organism ClassificationAOrganism Classification & Database - Classify organism: NCBI taxonomy, Ensembl taxonomy, ChEMBL organisms, and genome info. Use this skill for taxonomy tasks involving get taxonomy get taxonomy id get organism by id get genome dataset report by taxon. Combines 4 tools from 3 SCP server(s).toolspythonapiVotes: 0GitHub stars: 170
Ncbi Gene Deep DiveANCBI Gene Deep Dive - Deep dive into NCBI gene: metadata, dataset report, product report, orthologs, and gene links. Use this skill for gene biology tasks involving get gene metadata by gene name get gene dataset report by id get gene product report by id get gene orthologs get gene links by id. Combines 5 tools from 1 SCP server(s).toolspythonapiVotes: 0GitHub stars: 170
Multispecies Gene AnalysisAMulti-Species Gene Analysis - Analyze gene across species: Ensembl homologs, NCBI orthologs, cross-species STRING similarity, and taxonomy. Use this skill for comparative genomics tasks involving get homology symbol get gene orthologs get best similarity hits between species get taxonomy. Combines 4 tools from 3 SCP server(s).toolspythonapiVotes: 0GitHub stars: 170
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Multiomics IntegrationAMulti-Omics Integration - Integrate multi-omics: gene expression, protein data, pathway enrichment, and metabolic pathways. Use this skill for multi-omics tasks involving get gene expression across cancers get uniprotkb entry by accession get functional enrichment kegg get. Combines 4 tools from 4 SCP server(s).toolspythonexpressVotes: 0GitHub stars: 170
Mouse Model AnalysisAMouse Model Disease Analysis - Analyze mouse disease models: MouseMine search, NCBI mouse gene data, Ensembl cross-species comparison, and orthologs. Use this skill for model organisms tasks involving mousemine search get gene metadata by gene name get homology symbol get gene orthologs. Combines 4 tools from 3 SCP server(s).toolspythonapiVotes: 0GitHub stars: 170
Microbiome GenomicsAMicrobiome Genomics Analysis - Analyze microbial genome: NCBI genome data, taxonomy, KEGG metabolic pathways, and annotation. Use this skill for metagenomics tasks involving get genome dataset report by taxon get taxonomy kegg find get genome annotation report. Combines 4 tools from 2 SCP server(s).toolspythonapiVotes: 0GitHub stars: 170
Kegg Gene SearchASearch KEGG database for gene information to retrieve pathway associations, functional annotations, and disease links.toolspythonapiVotes: 0GitHub stars: 170
Go Term AnalysisAGene Ontology Analysis - Analyze GO terms: ChEMBL GO slim, STRING functional enrichment, STRING annotation, and Ensembl ontology. Use this skill for functional genomics tasks involving get go slim by id get functional enrichment get functional annotation get ontology name. Combines 4 tools from 3 SCP server(s).toolspythongoVotes: 0GitHub stars: 170
Genome AnnotationAGenome Annotation Pipeline - Annotate a genome: NCBI annotation report, Ensembl gene lookup, UCSC tracks, and KEGG pathway links. Use this skill for genomics tasks involving get genome annotation report get lookup symbol list tracks kegg link. Combines 4 tools from 4 SCP server(s).toolspythonapiVotes: 0GitHub stars: 170