Claude Skills by HolobiomicsLab

Use when when ingesting raw or vendor-format mass spectrometry data files

Use when you need to generate blank or background-only .mzML files for

Use when after running tardisPeaks() with screening_mode=TRUE on centroided

Use when after screening-mode validation of your m/z and retention time

Use when you have (1) a benchmark dataset of reference peaks with validated

Use when when you have processed LC-MS data through XCMS alignment but

'Use when after loading centroided .mzML LC-MS data and defining a target

Use when you have raw LC-MS data (mzML or vendor format) and need to

Use when you have LC-HRMS profile-mode data (retention time × m/z matrix

Use when you have raw mzML files from an FTICR-MS or other direct-injection

Use when you have multiple high-resolution mzML files from LC-MS/MS experiments

Use when you have centroided mzML data and a curated set of target molecules

Use when you have loaded raw LC-MS or direct-injection FTICR-MS data

Use when after constructing baseline-corrected mass tracks (either composite

Use when when you have LC-MS/MS raw data (mzML or netCDF format) and

Use when after sliding-window analysis has identified candidate TIC peaks

Use when you have a user-defined reference list of isolated, high-confidence

Use when analyzing GC-MS data containing overlapping chromatographic

Use when after peak detection when you have a table of detected peaks

Use when when you have a feature table (CSV with m/z and retention time

Use when when processing untargeted LC-MS metabolomics data with XCMS

Use when when you have loaded raw GC-MS data in netCDF or mzML format

Use when after retention-time-based and abundance-correlation-based feature

Use when running targeted peak detection on LC-MS data acquired with

Use when when you have a feature table from LC-MS peak detection (e.g.,

Use when you have GC-MS data with multiple replicate injections or samples,

Use when after extracting retention times from top MS1 features detected

Use when working with large GCIMS matrices where computational speed

Use when you have raw spectra files from a liquid chromatography experiment

Use when when you have raw GC–MS or LC–MS data (m/z vs retention time

Use when you have a large mass spectrometry dataset stored across multiple

Use when when you have a multi-platform Qt5 C++ project (Windows, macOS,

Use when you need to verify that a GitHub Actions workflow (such as a

Use when you need to automate testing and quality checks on code changes—specifically

Use when when a repository displays a GitHub Actions workflow badge (e.

Use when when a Python package is being relocated to a new GitHub organization

Use when when you need to verify that a continuous integration pipeline

Use when you need to verify that a GitHub Actions workflow (such as dev_build_release.yml)

Use when you have configured a GitHub Actions workflow that executes

Use when you have a GitHub repository with published CI workflow badges

Use when you have access to a GitHub repository with a Maven-based CI

Use when after running a comprehensive preprocessing workflow comparison

Use when you are implementing multiple accessor methods on a backend

Use when you have TWIM-MS experimental data (arrival times and ion mobility

Use when you need to understand the extensibility surface of a modular

Use when after generating cross-spectrum negative examples via precursor

Use when your PPI prediction dataset has a large mismatch between positive

Use when preparing training batches for a neural network classifier on

Use when when you have multi-omic TWIM-MS data (raw or processed arrival-time

Use when after identifying putative BGC-encoded precursor peptides from