Tools & Automation

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

skills in category: 47,666
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Showing 11,161–11,184 of 47,666 skills

Proteome AnalysisAProteome-Level Analysis - Analyze at proteome level: get proteome from UniProt, gene-centric view, functional annotation from STRING. Use this skill for proteomics tasks involving get proteome by id get gene centric by proteome get functional annotation. Combines 3 tools from 2 SCP server(s).toolspythonapiVotes: 0GitHub stars: 170
Protein Structure AnalysisAProtein Structure Comprehensive Analysis - Comprehensive structure analysis: download PDB, extract chains, calculate geometry, quality metrics, and composition. Use this skill for structural biology tasks involving retrieve protein data by pdbcode extract pdb chains calculate pdb structural geometry calculate pdb quality metrics calculate pdb composition info. Combines 5 tools from 1 SCP server(s).toolspythonapiVotes: 0GitHub stars: 170
Protein Solubility OptimizationAProtein Solubility Optimization - Optimize protein solubility: calculate properties, predict solubility, predict hydrophilicity, and suggest mutations. Use this skill for protein engineering tasks involving calculate protein sequence properties predict protein function ComputeHydrophilicity zero shot sequence prediction. Combines 4 tools from 3 SCP server(s).toolspythonapiVotes: 0GitHub stars: 170
Protein Similarity SearchAProtein Similarity Search - Search for similar proteins: extract sequence from PDB, search structures with FoldSeek, find homologs with STRING, and check UniProt. Use this skill for bioinformatics tasks involving extract pdb sequence foldseek search get best similarity hits between species search uniprotkb entries. Combines 4 tools from 3 SCP server(s).toolspythonapiVotes: 0GitHub stars: 170
Protein Property ComparisonACross-Species Protein Comparison - Compare proteins across species: get orthologs from NCBI, compute properties for each, and compare similarity. Use this skill for comparative biology tasks involving get gene orthologs calculate protein sequence properties calculate smiles similarity get homology id. Combines 4 tools from 3 SCP server(s).toolspythonapiVotes: 0GitHub stars: 170
Protein Properties CalculationACalculate comprehensive protein sequence properties including isoelectric point, molecular weight, hydrophobicity, and physicochemical parameters.toolspythonexpressVotes: 0GitHub stars: 170
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Protein Interaction NetworkAProtein Interaction Network Analysis - Build protein interaction network: map identifiers with STRING, get PPI network, compute enrichment, and link to KEGG pathways. Use this skill for systems biology tasks involving mapping identifiers get string network interaction get ppi enrichment kegg link. Combines 4 tools from 2 SCP server(s).toolspythonapiVotes: 0GitHub stars: 170
Protein Function AnnotationAProtein Function Annotation Pipeline - Annotate protein function: UniProt metadata, InterPro domains, functional prediction, and GO enrichment. Use this skill for proteomics tasks involving query uniprot query interpro predict protein function get functional enrichment. Combines 4 tools from 2 SCP server(s).toolspythongoVotes: 0GitHub stars: 170
Protein EngineeringAProtein Engineering Workflow - Engineer a protein: predict structure, identify functional residues, predict beneficial mutations, and calculate properties. Use this skill for protein engineering tasks involving Protein structure prediction ESMFold predict functional residue zero shot sequence prediction calculate protein sequence properties. Combines 4 tools from 2 SCP server(s).toolspythonapiVotes: 0GitHub stars: 170
Protein Database CrossrefAProtein Cross-Database Reference - Cross-reference protein: UniProt entry, NCBI gene, Ensembl xrefs, and PDB structure search. Use this skill for proteomics tasks involving get uniprotkb entry by accession get gene metadata by gene name get xrefs symbol retrieve protein data by pdbcode. Combines 4 tools from 4 SCP server(s).toolspythonapiVotes: 0GitHub stars: 170
Protein Classification AnalysisAProtein Classification Analysis - Classify protein: ChEMBL protein classification, UniProt entry, InterPro domains, and Ensembl biotypes. Use this skill for protein science tasks involving search protein classification get uniprotkb entry by accession query interpro get info biotypes. Combines 4 tools from 4 SCP server(s).toolspythonapiVotes: 0GitHub stars: 170
Protein Blast SearchASearch for similar protein sequences in UniProt Swiss-Prot database using BLAST to identify homologous proteins and functional relationships.toolspythongoVotes: 0GitHub stars: 170
Mutation Impact AnalysisAMutation Impact Analysis - Analyze mutation impact: predict structure, predict mutations from sequence and structure, and check variant effects with Ensembl VEP. Use this skill for molecular biology tasks involving pred protein structure esmfold zero shot sequence prediction predict zero shot structure get vep hgvs. Combines 4 tools from 3 SCP server(s).toolspythonapiVotes: 0GitHub stars: 170
Molecular Visualization SuiteAMolecular Visualization Suite - Visualize molecules: convert SMILES to formats, visualize molecule, visualize protein, visualize complex. Use this skill for chemical visualization tasks involving convert smiles to format visualize molecule visualize protein visualize complex. Combines 4 tools from 1 SCP server(s).toolspythonapiVotes: 0GitHub stars: 170
Metabolomics PathwayAMetabolomics Pathway Analysis - Analyze metabolomics: compound identification, KEGG pathway mapping, enzyme links, and PubChem data. Use this skill for metabolomics tasks involving search pubchem by name kegg find kegg link kegg get. Combines 4 tools from 2 SCP server(s).toolspythonapiVotes: 0GitHub stars: 170
Lab Protocol From LiteratureALab Protocol from Literature - Extract and generate lab protocol: search PubMed, extract protocol from paper, and generate executable protocol. Use this skill for lab science tasks involving pubmed search extract protocol from pdf protocol generation generate executable json. Combines 4 tools from 2 SCP server(s).toolspythonapiVotes: 0GitHub stars: 170
Interproscan PipelineAInterProScan Analysis Pipeline - Run InterProScan for domain analysis, then enrich with UniProt data and STRING interactions. Use this skill for functional proteomics tasks involving interproscan analyze get uniprotkb entry by accession get functional enrichment query interpro. Combines 4 tools from 4 SCP server(s).toolspythonapiVotes: 0GitHub stars: 170
Full Protein AnalysisAFull Protein Characterization - Complete protein characterization: validate sequence, compute all properties, predict structure, and analyze pockets. Use this skill for protein biochemistry tasks involving is valid protein sequence analyze protein ComputeProtPara pred protein structure esmfold run fpocket. Combines 5 tools from 4 SCP server(s).toolspythonapiVotes: 0GitHub stars: 170
Enzyme EngineeringAEnzyme Active Site Engineering - Engineer enzyme: identify active site residues, predict pocket, analyze binding site, and predict mutations. Use this skill for enzymology tasks involving predict functional residue run fpocket get binding site by id pred mutant sequence. Combines 4 tools from 3 SCP server(s).toolspythonapiVotes: 0GitHub stars: 170
Disease Protein ProfilingADisease Protein Profiling - Profile a disease protein: UniProt data, AlphaFold structure, InterPro domains, phenotype associations from Ensembl. Use this skill for medical proteomics tasks involving query uniprot download alphafold structure query interpro get phenotype gene. Combines 4 tools from 2 SCP server(s).toolspythonapiVotes: 0GitHub stars: 170
Blast Protein AnalysisABLAST & Protein Analysis Pipeline - BLAST search followed by comprehensive protein analysis: BLAST, then structure prediction, properties, and function. Use this skill for sequence bioinformatics tasks involving blast search pred protein structure esmfold calculate protein sequence properties predict protein function. Combines 4 tools from 4 SCP server(s).toolspythonapiVotes: 0GitHub stars: 170
Binding Site CharacterizationABinding Site Characterization - Characterize binding sites: predict pockets with fpocket and P2Rank, get binding site info from ChEMBL, and visualize. Use this skill for structural biology tasks involving run fpocket pred pocket prank get binding site by id visualize protein. Combines 4 tools from 3 SCP server(s).toolspythonapiVotes: 0GitHub stars: 170
Antibody Target AnalysisAAntibody-Target Analysis - Analyze an antibody target: UniProt protein info, InterPro domains, protein properties, and biotherapeutic data from ChEMBL. Use this skill for immunology tasks involving get uniprotkb entry by accession query interpro ComputeProtPara get biotherapeutic by name. Combines 4 tools from 4 SCP server(s).toolspythonapiVotes: 0GitHub stars: 170
Higgsfield GenerateCGenerate images/videos via Higgsfield AI. Default focus: GPT Image 2 for images/design/text, Seedance 2.0 for video, Nano Banana 2/Pro for character and reference-driven image work, and Marketing Studio for ads with avatars/products/hooks/settings. Also supports specialist Soul V2/Cinema/Cast/Location and Kling 3.0. Use when: "generate an image", "make a picture", "make a video", "animate this photo", "image-to-video", "edit/stylize/remix this image", "produce a clip", "create an ad", "make a...toolsgobashVotes: 0GitHub stars: 2