65published examples

Detect rice flowers

Detect rice flowers: Trace what the app does with a frame: it shows it, overlays the published boxes, and lets a reviewer say what they see — nothing more.

Count colonies

Count colonies: Follow one plate through the app: it is shown, its published boxes are overlaid, and a reviewer accepts or rejects boxes; the count exists only after review.

Chat over documents

Chat over documents: Trace a question end to end: retrieve passages → draft an answer that only uses those passages → show each passage next to its sentence.

Explore DNA variants

Explore DNA variants: Trace one variant: it is a VCF row → shown on the variant track → supported (or not) by the reads underneath.

Explore molecular structures

Explore molecular structures: Trace one annotation: a residue range → highlighted on the surface → its source shown in a side panel.

Explore microscopy in 3D with napari

Explore microscopy in 3D with napari: Trace one review action: change slice → toggle labels → add a point annotation → export points and labels.

Segment cells with Cellpose

Segment cells with Cellpose: Trace one cell: pixels → mask → accepted or rejected by a reviewer → exported with the run record.

MorphoGraphX

MorphoGraphX: Trace one cell: it has a mesh position, a measured area per time point, and a growth value between time points; the app links the three.

QuPath

QuPath: Trace the chain slide → region → detections → summary and decide which of those the app shows (all four, linked).

Build a curriculum with Payload

Build a curriculum with Payload: Trace one chapter: draft → review → publish → rendered page with shared layout.

Clone existing software

Clone existing software: Walk the slice as a user and as the system: what is entered, what is checked, what is stored.

Start with a UX

Start with a UX: Trace one shift: status feed → board → operator action → logged.

Jarvis-like voice agents

Jarvis-like voice agents: Trace one request: speech → intent → confirmation → action → spoken result.

HealthOS knowledge agents

HealthOS knowledge agents: Trace one question: retrieve from allowed sources → answer with citations → refuse if no source.

n8n workflow automation

n8n workflow automation: Draw the branches before touching n8n: happy path, missing data, and who gets asked when the workflow cannot decide.

Compare Wnt reporter responses

Compare Wnt reporter responses: Trace one replicate: raw → background-subtracted → normalised → plotted as a dot behind the fitted curve.

Review the direction of a cell division

Review the direction of a cell division: Trace one cell: place tissue-axis points → place daughter-cell centres → the app computes the acute angle and draws both axes.

Compare cell-type signatures across animals

Compare cell-type signatures across animals: Trace one marker: curated mapping → aligned values across species → cell shows a value or 'unknown'.

Explore signals around a muscle stem cell

Explore signals around a muscle stem cell: Trace one edge: ligand expressed in A + receptor expressed in B + curated pair → candidate edge A→B with both rows shown.

Follow one stem cell's descendants

Follow one stem cell's descendants: Trace one clone: validate parent links → walk descendants → show the tree beside the image region it came from.

Compare organ growth as a fish grows

Compare organ growth as a fish grows: Trace one fish: select → choose normalisation (area / length²) → compare trajectories.

Compare autophagy receptor architectures

Compare autophagy receptor architectures: Trace one feature: validate coordinates → draw on the track → show provenance on click.

Review autophagy puncta under stress

Review autophagy puncta under stress: Trace one candidate: overlay → assign to a cell → accept or reject with reason → per-cell count.

Turn fish activity into an actogram

Turn fish activity into an actogram: Trace a day: align timestamps to Zeitgeber time → bin → draw one row per day, twice (double plot).

Compare clock timing after a schedule change

Compare clock timing after a schedule change: Trace one comparison: choose a peak per trace → reference to the schedule → wrapped difference.

Inspect photobodies as light conditions change

Inspect photobodies as light conditions change: Trace one nucleus: align frames → review spots → per-nucleus summary over time.

Compare shoot-to-root signal timing

Compare shoot-to-root signal timing: Trace one region: select → its trace → reviewed onset → compare with another region.

Measure a stem's vascular tissue layers

Measure a stem's vascular tissue layers: Trace one tissue: review mask → check overlap → area and radial extent.

Explore a simple radial-growth model

Explore a simple radial-growth model: Trace one step: allocate area → radius → ring.

Explore a sulfur-metabolism model

Explore a sulfur-metabolism model: Trace one run: define reactions → simulate a supply → inspect trajectories.

Trace a larval neural circuit

Trace a larval neural circuit: Trace one neuron: validate its ID → list partners → walk a directed path, each hop backed by a synapse row.

Compare larval movement around a stimulus

Compare larval movement around a stimulus: Trace one track: validate continuity → motion → align to stimulus.

Map plant records with their uncertainty

Map plant records with their uncertainty: Trace one record: validate coordinates → draw a halo sized by its uncertainty → link the point to its record.

Compare plant traits across ploidy groups

Compare plant traits across ploidy groups: Trace one trait: select comparable units → group by documented ploidy → inspect variation.

Explore Hox targets by tissue and stage

Explore Hox targets by tissue and stage: Trace one gene: select contrasts → inspect evidence layers → shortlist.

Map markers across a shoot meristem

Map markers across a shoot meristem: Trace one marker: join → colour → inspect a subset.

Compare meristem responses to hormone pulses

Compare meristem responses to hormone pulses: Trace one replicate: baseline → align to pulse → response.

Turn a root image into a branching map

Turn a root image into a branching map: Trace one branch: trace → confirm parent → measure.

Follow founder-cell shape before root initiation

Follow founder-cell shape before root initiation: Trace one frame: validate → measure → timing.

Align spindle motion with mitotic events

Align spindle motion with mitotic events: Trace one frame: pair poles → geometry → align events.

Review early cilia assembly cell by cell

Review early cilia assembly cell by cell: Trace one cell: review → annotate → summarise with declared denominator.

Compare cell fate with developmental history

Compare cell fate with developmental history: Trace one barcode: validate joins → cells → state composition per embryo.

Compare calibrated organelle pH reporters

Compare calibrated organelle pH reporters: Trace one point: correct → ratio → interpolate within calibration.

Compare diet and gut-microbe effects together

Compare diet and gut-microbe effects together: Trace one readout: design → compatible contrasts.

Trace O-mannosylation across cellular compartments

Trace O-mannosylation across cellular compartments: Trace one species: follow reactions → inspect evidence per step.

Inspect what a multi-omics factor represents

Inspect what a multi-omics factor represents: Trace one factor: which views it explains → its top loadings → how its scores line up with metadata (including batch).

Compare spatial expression patterns across conditions

Compare spatial expression patterns across conditions: Trace one feature: declare scale → inspect regions per sample.

Review retinal layers and growing eye shape

Review retinal layers and growing eye shape: Trace one ray: boundaries → intersections → thickness.

Inspect aquatic toxicity endpoints by dose and time

Inspect aquatic toxicity endpoints by dose and time: Trace one endpoint: validate counts → compare compatible studies.

Review extension and retraction at a growth cone

Review extension and retraction at a growth cone: Trace one interval: continuity → projection → label.

Inspect a mustard-family phylogeny and its support

Inspect a mustard-family phylogeny and its support: Trace a clade: validate tip IDs → draw the fixed tree → select a node → list exactly its descendants.

Compare chicory inulin chain-length profiles

Compare chicory inulin chain-length profiles: Trace one profile: compatible → normalise → compare.

Inspect ion-channel currents across voltage steps

Inspect ion-channel currents across voltage steps: Trace one sweep: pick a baseline window → subtract → measure the declared window → place one point on the I–V plot.

Compare extracellular-matrix protein domains

Compare extracellular-matrix protein domains: Trace one protein: validate → tracks → evidence layers.

Compare N-terminal acetylation under plant stress

Compare N-terminal acetylation under plant stress: Trace one peptide: comparable signals → replicates → candidate rows.

Plasmid map viewer

Plasmid map viewer: Trace a file through the app: parse → features and ORFs → circular and linear map → cut sites for the chosen enzymes.

qPCR ΔΔCt calculator

qPCR ΔΔCt calculator: Trace one gene: Ct → ΔCt vs reference → ΔΔCt vs calibrator → fold change, with replicate SD carried through.

Western blot band densitometer

Western blot band densitometer: Trace one lane: box → intensity profile → background subtraction → peak area → normalised to the control lane.

Flow cytometry gating lite

Flow cytometry gating lite: Trace the data: parse → transform (logicle) → draw two gates → report population percentages with their parent gate.

AlphaFold confidence inspector

AlphaFold confidence inspector: Trace one protein: pLDDT per residue → confidence bands → PAE matrix → segments worth trusting.

Single-cell mini explorer

Single-cell mini explorer: Trace one cluster: cells → UMAP position → cluster label → top markers → expression of one gene.

OME-Zarr cloud image browser

OME-Zarr cloud image browser: Trace one image: URL → multiscale metadata → pick a resolution level → channels, z, t → display.

Camera-trap triage

Camera-trap triage: Trace one frame: detector → boxes with class and confidence → threshold → bin → human review.

Literature triage with citations

Literature triage with citations: Trace one paper: search → abstract → LLM summary limited to quoted sentences → human decision → log.

Protocol → bench checklist

Protocol → bench checklist: Trace one step: original text → derived checklist item + duration + reagents → progress state → print view.