End-to-end flow cytometry workflow from FCS files to differential analysis. Orchestrates compensation, transformation, gating/clustering, and statistical testing with CAT — from…
Fourier Transform Infrared spectroscopy skill for molecular identification and surface functional group analysis
Green chemistry metrics calculation skill for atom economy, E-factor, and process mass intensity
Surface chemistry skill for managing ligand exchange reactions, bioconjugation protocols, and functional group quantification
Specialized skill for polymer materials analysis including molecular weight distribution, thermal transitions, crystallinity, and rheological properties
RDKit chemoinformatics skill for molecular property calculation and compound library management
Use when targeting Accounts of Chemical Research (Acc Chem Res) or deciding whether a chemistry account manuscript fits this ACS venue.
Use when targeting ACS Central Science (ACS Cent. Sci.) or deciding whether a chemistry manuscript fits this open-access, broad, high-impact venue for chemistry of central…
Use when you have statistically significant LC-MS features (e.g., filtered by p-value < 0.01) from multi-assay metabolomics datasets and need to group features that represent the…
Top-down deep dive analysis on a US-listed stock with macro context, valuation audit, insider check, catalysts, and 3-tier entry plan with LEAPS option. Pulls live data via yfmcp.
Use when targeting Angewandte Chemie International Edition (Angew Chem Int Ed) or deciding whether a chemistry manuscript fits this GDCh/Wiley venue.
Helps choose the right battery type and charging solution for Arduino/ESP32/RP2040 projects. Use when user asks about battery options, charging circuits, power source selection,…
Detect single-nucleotide crosslink (CL) sites in CLIP-seq data using truncation patterns (iCLIP/eCLIP CITS), crosslink-induced mutations (HITS-CLIP CIMS deletions, PAR-CLIP…
Basecalls raw Oxford Nanopore signal (POD5/FAST5) into reads with Dorado, choosing the chemistry-matched model and accuracy tier (fast/hac/sup), requesting modified bases…
Aligns Oxford Nanopore and PacBio long reads (and assemblies) to a reference with minimap2 using the error-rate-matched preset (map-ont, lr:hq, map-hifi, map-pb, splice/splice:hq,…
Turns raw Illumina Infinium methylation BeadChip IDATs (450K, EPIC, EPICv2) into a defensible beta/M matrix with sesame (openSesame/SigDF) or minfi (RGChannelSet -> MethylSet ->…
End-to-end flow, spectral, and mass cytometry (CyTOF) pipeline from raw FCS files to differentially abundant/expressed cell populations.
Check if medicinal chemistry papers are in ChEMBL database to access curated bioactivity data — from kthorn/research-superpower
Check if medicinal chemistry papers are in ChEMBL database to access curated bioactivity data — from science/chemistry
Use when targeting Chem (Cell Press) or deciding whether a chemistry manuscript fits this venue. Encodes the journal's fit, framing, method-and-evidence bar, house style,…
Use when targeting Chemical Reviews (Chem Rev) or deciding whether a chemistry review manuscript fits this ACS venue.
Use when targeting Chemical Society Reviews (Chem Soc Rev) or deciding whether a chemistry review manuscript fits this RSC venue.
9 chemistry skills. Trigger: chemical structure analysis, reaction prediction, molecular modeling. Design: computational chemistry tools and cheminformatics workflows.
Chemistry expert covering organic, inorganic, physical chemistry, lab safety, and experimental techniques
Use when you have a curated dataset of ≤10,000 molecular structures with known collision cross section values for training, a target set of ≤10,000 molecules requiring CCS…
ISC template for Chemistry & Materials. Tool: unknown. Anchor: WEAK. Keywords: compchem_pymatgen, unknown, ISC, TVD.
Use when when you have ionized adduct structures (SMILES or MOL format) from an ionization-state determination step and need to create an ensemble of relaxed 3D geometries for…
Use when targeting Coordination Chemistry Reviews (CCR) or deciding whether a review fits this Elsevier venue for coordination, inorganic, and organometallic chemistry.
Use when you have generated or curated a lipid spectral library (with precursor m/z, adduct information, charge states, retention times, and fragmentation patterns) and need to…
End-to-end flow cytometry workflow from FCS files to differential analysis. Orchestrates compensation, transformation, gating/clustering, and statistical testing with CAT — from…
Pythonic wrapper around RDKit with simplified interface and sensible defaults. Preferred for standard drug discovery including SMILES parsing, standardization, descriptor — from…
Develop a gas chromatography method from scratch: define analytical objectives, select column chemistry, optimize temperature programming, choose carrier gas and detector, and…
Develop a high-performance liquid chromatography method: define separation goals, select column chemistry and mobile phase, optimize gradient and flow conditions, choose the…
Author-guideline skill for Food Chemistry (Elsevier, ISSN 0308-8146). Use when preparing, formatting, or checking a manuscript for submission to Food Chemistry — structure,…
Use when you have m/z values from mass spectrometry imaging (or similar MSI experiments) and need to assign molecular formulae to them.
Use when you have 1D or 2D NMR spectra (1H and/or 13C) and need to predict unknown molecular structure (formula and connectivity) up to ~19 heavy atoms; or you have a set of…
Use when you have imaging mass spectrometry data from spatial metabolomics experiments and need to reduce the high-dimensional peak space to a ranked set of marker ions for…
Systematically interpret mass spectra to determine molecular formula, identify fragmentation pathways, and propose molecular structures.
Guides IHC panel selection and interpretation for tumor classification and prognostication. Use when ordering IHC panels, interpreting staining patterns, or classifying tumors by…
Industrial production of iron and steel from ore to finished product — blast furnace, Bessemer converter, open-hearth, basic oxygen, electric arc, continuous casting, rolling, and…
Use when targeting JACS Au or deciding whether a chemistry manuscript fits this gold open-access, broad, high-quality sister journal of JACS.
Use when deciding whether a chemistry result belongs in the Journal of the American Chemical Society (JACS) versus a specialized ACS journal, and which JACS format fits.
Author-guideline skill for Journal of Agricultural and Food Chemistry (ACS, ISSN 0021-8561). Use to format or check a manuscript for JAFC — ACS structure, TOC/abstract graphic,…
Use when targeting Journal of the American Chemical Society (JACS) or deciding whether a chemistry manuscript fits this ACS venue.
Resolve a target food/nutrition journal to its author-guideline skill and formatting constraints. Use at the start of writing, formatting, or submission-prep for a food-science…
初中化学快速巩固 Skill是面向每日打卡、同步巩固的产品级 Hermes Skill，年级、册别、单元、知识点和难度通过参数传入。 Workflow: junior_chemistry_quick_practice.run.
Use when you have N-methyl-derivatized unsaturated sterol lipid structures (as SMILES or molecular formula) and need to predict their MS/MS fragmentation behavior before…
Use when you have a collection of MS/MS spectra (in mzML or MGF format) from a proteomics experiment and need to group or retrieve spectra derived from the same peptide without…
Use when you have a GNPS-generated molecular network (graphml or JSON format) and corresponding MS2LDA experiment results or chemical class assignments, and you want to annotate…
Use when when processing in-silico or experimental MS spectra records from databases with incomplete metadata, specifically when the adduct field is null or absent but the ionmode…
Use when you have raw mass spectrometry instrument output (mzML, vendor binary formats, or mzPeak archives) and need to load spectrum metadata, chromatogram data, or signal arrays…
Use when you have mass spectrometry data available in multiple identifier formats (GNPS Task ID, Universal Spectrum Identifier, or Feature-Based Molecular Networking task…
Use when you have raw mass spectrometry data in mzML or Bruker .d format and need to ingest it into a tabular format (pandas DataFrame) for visualization, statistical analysis, or…
Use when after RAMClustR clustering and molecular weight inference via do.findmain, when you need to export deconvoluted cluster spectra for import into external annotation tools…
Use when you have a normalized abundance matrix from LC-MS/MS profiling with sample class assignments (e.g., phenotypic groups, disease states, treatment conditions) and need to…
Use when when you have raw or processed TWIM-MS data (arrival time and m/z values) from a mass spectrometry instrument and need to organize it into a feature table before…
Use when when you have Thermo Fisher Scientific Orbitrap .raw files (e.g., from Q Exactive HF instruments) and need to extract spectral, chromatographic, or metadata directly into…
Use when you have experimental fragment m/z peaklists from Q-Exactive orbitrap, Agilent Q-TOF, Bruker Q-TOF, or SCIEX Q-TOF UHPLC-HRMS/MS instruments (in CSV or mzML-derived table…
Use when you have raw MS imaging data in imzML (continuous or processed) or Analyze 7.5 format and need to load it into R for spectral processing, normalization, peak-picking, or…
Use when when you have preprocessed MALDI-MSI data (in msimat format) and want to determine whether abundant peaks are actually molecular adducts of simpler parent ions rather…