Data

Export paper from CNKI and push to Zotero, or save as RIS file.

Convert Markdown files to PDF, PNG, or JPEG using headless Chrome (Puppeteer), following the same methodology as VS Code's Markdown Preview Enhanced extension.

Estimates intracellular metabolic fluxes from steady-state carbon-13 isotope-tracing measurements using validated atom maps, mfapy isotope simulation…

Applies Arbor Hypothesis Tree Refinement to research artifacts with repeatable evaluators, including model training, agent harnesses, data synthesis and…

Organizes, queries, validates, and converts Brain Imaging Data Structure (BIDS) datasets.

Builds molecular property prediction and MoleculeNet workflows with DeepChem, including SMILES featurization, scaffold or grouped holdouts, masked labels…

Retrieves and analyzes Cancer Dependency Map (DepMap) release data, including CRISPR Chronos gene effects, cancer model annotations, omics biomarkers, and…

Designs experiments and studies BEFORE data is collected — choosing a design, randomizing, blocking, and laying out treatment combinations so results are…

Performs bounded, local exploratory analysis of explicitly supported scientific files.

Analyzes flow cytometry data with FlowKit, including spillover compensation, logicle and biexponential transforms, hierarchical gating, GatingML strategies…

Queries 20+ bioinformatics resources through CLI/Python.

Queries and downloads public cancer imaging data from NCI Imaging Data Commons.

Creates and reviews infographics with Nano Banana 2 via OpenRouter.

Builds, registers, debugs, and operates bioinformatics workflows on Latch using the Python SDK, CLI, Latch Data and Registry, Nextflow, Snakemake…

Creates and customizes scientific plots with Matplotlib.

Analyzes Neuropixels extracellular recordings end-to-end with SpikeInterface.

Converts neuroscience acquisition data to Neurodata Without Borders files with NeuroConv and PyNWB, preserves metadata and timebases, checks evidence-based…

Inspects and automates microscopy data workflows against OMERO.server with omero-py, BlitzGateway, OMERO CLI, tables, annotations, ROIs, rendering, and…

Performs Particle Image Velocimetry (PIV) analysis with OpenPIV.

Queries public GenSpectrum LAPIS data for pathogen genomic surveillance, current lineage nomenclature, weekly sequence proportions, reporting delays, and…

Performs pathway and gene-set enrichment analysis on gene lists or ranked gene data and interprets the results.

Builds and analyzes phylogenetic trees using MAFFT multiple sequence alignment, IQ-TREE maximum likelihood with ModelFinder and branch support, and FastTree…

Pharmacokinetic and pharmacodynamic modelling and simulation - non-compartmental analysis, compartmental and population PK, PK/PD and exposure-response, TMDD…

Queries a pinned Precision Medicine Knowledge Graph (PrimeKG) CSV for typed gene, drug, disease, and phenotype nodes, direct associations, disease context…