Claude Skills by HolobiomicsLab

Use when when you have cloned a .NET Framework or .NET Core WPF project

Use when use this skill after building a Docker image that installs Wine

Use when you have a Windows-only C# GUI application (e.g., AirdPro) built

Use when you are deploying a Windows .NET application (e.g., AirdPro

Use when you have already assigned samples to batches (inter-batch balance

Use when your metabolomics dataset is in long format with repeated measurements

Use when after initial lipid candidate annotation via spectral library

Use when when you have pre-processed MS/MS spectra and a pre-trained

Use when when comparing large numbers of MS/MS spectra against spectral

Use when you have a large collection of preprocessed MS/MS spectra (typically

Use when when applying a pre-trained Word2Vec model to mass spectra at

Use when when you have a collection of mass spectra (e.

Use when converting MS/MS spectra into Spec2Vec embeddings using a pre-trained

Use when you need to understand how a complex MS/MS spectral search system

Use when when a spectral matching tool produces mixed output containing

'Use when when you have a Nextflow workflow repository with a Makefile,

Use when when preparing to execute the Nextflow4MS-DIAL workflow on raw

Use when you have a workflow.csv file co-located with sequence.csv in

'Use when when submitting OpenMS workflows to RQ (Redis Queue) in online

Use when you have located a workflow definition file (YAML or JSON) in

Use when when you have a multi-step computational chemistry or molecular

Use when after executing a Nextflow-based MS-DIAL workflow on .mzML LC-HRMS

Use when you have prepared metabolomics input files (feature quantification

Use when after implementing or deploying a containerized Nextflow workflow

Use when when you have raw mass spectrometry data files from multiple

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

Use when when you have cloned the MsdialWorkbench repository and need

Use when you have raw LC-MS or GC-MS data files from a mass spectrometer

Use when you have raw mzXML LC/MS files from replicated metabolomics

Use when you have preprocessed LC-MS data with detected chromatographic

Use when xCMS grouping has been performed on LC-MS data from studies

Use when you have raw gas or liquid chromatography–mass spectrometry

Use when xCMS has produced aligned LC-MS features but alignment quality

Use when you have raw untargeted metabolomics data (at least 3 samples

Use when when you have direct-injection or low-complexity mass spectrometry

Use when you have xcms-processed LC-MS data with detected feature groups

Use when when you have raw LC-MS all-ion fragmentation (AIF) chromatograms

Use when you have centroid-mode LC–MS all-ion fragmentation (AIF) data

Use when you have raw LC-MS data files (mzML, netCDF, or raw vendor formats)

Use when you have aligned MS/MS feature tables (e.g., from MSDial ver.

Use when when you have a resolved spectrum file (mzML, mzXML) and need

Use when you have spectrum or chromatogram data stored as XML strings

Use when when spectrum or chromatogram data is stored as serialized XML

Use when you have a working R package or bioinformatics pipeline (e.g.,

Use when when you have retrieved a decompressed XML data block from an

Use when when you have synthesized or assembled mass spectrometry spectral

Use when you have extracted a centroided MS/MS spectrum from a Thermo

Use when when initializing a MolNotator project with user-defined parameters

Use when you have a versioned workflow definition file (YAML or JSON)

Use when you have multiple scoring functions (e.g., strain correlation