Skill UI

FlowIO reads and writes Flow Cytometry Standard (FCS) files, exposing metadata, channels, and NumPy event arrays while allowing CSV/DataFrame conversion, making it ideal for cytometry pipelines and backend preprocessing services.

Astropy is the fundamental Python package for astronomical research and astrophysics data processing. It provides essential tools for handling physical units, performing coordinate transformations across celestial frames (ICRS, Galactic, etc.), managing FITS files, conducting cosmological calculations, and precise time handling. It is indispensable for any task involving celestial coordinates, unit conversions, or analyzing large astronomical catalogs.

DeepTools is a comprehensive command-line toolkit for processing and analyzing high-throughput sequencing data. It supports workflows for ChIP-seq, RNA-seq, ATAC-seq, and other NGS experiments. Core capabilities include converting BAM files to normalized coverage tracks (bigWig), performing quality control (QC), sample correlation analysis, and generating publication-quality visualizations, such as heatmaps and profile plots across genomic regions.

This advanced tool utilizes the Digital Human DNA (DHDNA) framework to extract a comprehensive cognitive signature from any piece of text. It analyzes the author's unique thinking patterns, reasoning methods, decision-making styles, and core values across 12 detailed dimensions (e.g., Analytical Depth, Ethical Reasoning, Emotional Processing). It provides a structured profile, revealing the topology of the mind behind the writing, without judgment.

Matchms is a powerful Python package designed for importing, cleaning, processing, and comparing tandem mass spectra (MS/MS). It supports various file formats (mzML, MGF) and provides core functionalities including library searching, metadata harmonization, peak filtering, and calculating multiple similarity scores (e.g., Cosine, Neutral-loss). It is essential for metabolomics and mass spectrometry workflows, enabling the construction of structured score matrices and spectral similarity networks.

A comprehensive Python library for handling DICOM (Digital Imaging and Communications in Medicine) files. Use this skill for reading, writing, and manipulating complex medical images such as CT, MRI, and X-ray. Features include metadata extraction, pixel data manipulation, image anonymization (PHI removal), multi-format conversion, and processing multi-slice volumes, making it essential for medical data analysis and PACS integration.

A powerful Python library providing low-level, streaming access to standard genomics file formats supported by HTSlib (SAM/BAM/CRAM, VCF/BCF, FASTA/FASTQ, etc.). It facilitates reading, writing, querying, and filtering genomic data, making it essential for bioinformatics workflows.

Vaex is a high-performance Python library designed for processing and visualizing enormous tabular datasets that exceed available RAM (gigabytes to terabytes). It excels at out-of-core DataFrame operations, lazy evaluation, fast statistical aggregation, and machine learning integration on massive datasets. Use it for analyzing large CSV, Parquet, or HDF5 files efficiently on a single machine, without memory constraints.

Execute comprehensive, asynchronous transcription workflows using AssemblyAI. This tool handles file upload, queues jobs, and provides advanced audio intelligence features. Capabilities include speaker diarization, sentiment analysis, named entity recognition (NER), topic categorization (IAB), content safety moderation, and sensitive PII redaction. Ideal for processing meeting recordings, interviews, and large volumes of spoken content.

LiteParse is a fast, open-source tool for local, layout-aware text extraction from PDFs, Office files, and images. It provides structured JSON output with precise bounding boxes and supports OCR, making it ideal for building robust RAG systems, citation grounding, and multimodal agents. All processing is done locally without needing cloud APIs.