Claude Skills by HolobiomicsLab

Use when after constructing MetaboSet objects from Excel-formatted LC-MS

Use when after training logistic regression, random forest, and/or XGBoost

Use when after blank masking and sample dropping, when you have a feature

Use when when you have loaded a raw MS quantification table (feature-by-sample

Use when after features have been identified in LC-MS data via peak picking,

Use when after generating a feature table from LC-MS/MS data when your

Use when after sample alignment in untargeted LC-MS workflows, when the

Use when after feature extraction from mzML/mzXML files when you have

Use when you have trained multiple neural network models (e.

Use when a user supplies a custom feature list from external feature-finding

Use when you have feature lists in CSV format originating from different

Use when after per-sample quantification is complete (e.g., salmon has

Use when when you have a set of chemical structures (SMILES, SDF, mol,

Use when after integrating feature matrices from multiple analytical

Use when you have a heterogeneous feature matrix combining molecular

Use when after aggregating Pfam domain hits from HMM scanning into a

Use when you have preprocessed metabolomics feature abundance data and

Use when when you have raw mass spectrometry spectral data (peak intensities

Use when you have raw metabolomics data in CSV format (samples as rows,

Use when you have loaded a feature-by-pixel intensity matrix from an

Use when you have processed mass spectrometry data consisting of three

Use when after RAMClustR clustering and do.findmain molecular weight

Use when after completing sample alignment in JPA (Part 5) or when ingesting

Use when after loading and formatting raw peak-picked LC-MS metabolomics

Use when you have a preprocessed LC-MS feature table (m/z, retention

'Use when you have a preprocessed feature table (tab-delimited: feature

Use when you have created a feature-based GNPS molecular network and

Use when after extracting and encoding molecular descriptors and structural

Use when when you have parsed MS2 spectra from a single metabolomics

Use when after anchor selection and retention-time spline mapping have

Use when after temporal correlation has identified feature pairs with

Use when you have two feature matrices from different modalities (e.

Use when use this skill after XCMS feature detection and alignment on

Use when you have two LC-MS feature tables (each with m/z, retention

Use when you have a set of training LC-HRMS chromatograms (retention

Use when after blank subtraction and background drift removal in an MS-DIAL

Use when after nontargeted peak detection and segmentation has generated

Use when you have loaded search results from an upstream proteomics database

Use when when you have loaded search result files from one or more DIA-MS

Use when when processing MZmine2/MZmine3 peak tables from LC–MS metabolomics

Use when after structural clusters have been identified by MamsiStructSearch

Use when after signal drift correction and batch effect removal (step

Use when when deciding which molecular representation to use for retention

Use when you have a filtered MS-DIAL peak list (post-generic filtering,

Use when when you have a quantitative feature table from MZmine2/MZmine3

Use when after LC-MS feature detection, alignment, and quantification

Use when after initial retention-time-based feature grouping (e.

Use when you have aligned feature tables (CSV format) paired with MS2

Use when after generating a filtered feature table from raw mass spectrometry

Use when after Blueshift or Gravity processing has produced a feature