loom-client 0.0.1

Python WebSocket client for the Loom Genome Browser

loom-client

Python WebSocket client for the Loom Genome Browser. Provides a fully async, typed interface for programmatically controlling a running Loom instance -- navigating loci, managing tracks and regions of interest, exporting views, and subscribing to browser events.

Installation

pip install loom-client

Or install from source:

git clone https://github.com/riyavsinha/loom-client.git
cd loom-client
pip install -e .

Requires Python >= 3.11.

Quick start

import asyncio
from loom_client import LoomClient

async def main():
    client = LoomClient("ws://localhost:8080")
    await client.connect()

    # Get current browser state
    state = await client.get_browser_state()
    print(state.locus_string)   # e.g. "chr1:1,000-2,000"
    print(state.zoom_level)     # e.g. ZoomLevel.GENE

    # Navigate to a locus
    await client.navigate(locus="chr17:7565097-7590856")  # TP53

    # Zoom out 2x
    await client.navigate(zoom="out", factor=2.0)

    await client.close()

asyncio.run(main())

API reference

Connection

client = LoomClient(url)   # Create client
await client.connect()     # Open WebSocket + start listener
await client.close()       # Tear down

Commands

All command methods are async and return typed Pydantic models.

get_browser_state(record=None) -> ProjectedState

Returns the current viewport state including locus, zoom level, loaded tracks, and ROIs.

state = await client.get_browser_state()
for track in state.tracks:
    print(f"{track.name} ({track.type})")

navigate(locus=None, zoom=None, factor=None) -> bool

Move the viewport to a genomic locus or zoom in/out.

await client.navigate(locus="chr1:1000-2000")
await client.navigate(zoom="in", factor=3.0)

modify_tracks(actions) -> ModifyTracksResult

Add, remove, find, or update tracks in a single batch.

from loom_client import AddTrackAction, RemoveTrackAction, TrackSessionConfig, DataSourceConfig, WireTrackSelector

# Add a BigWig track
result = await client.modify_tracks([
    AddTrackAction(config=TrackSessionConfig(
        type="wig",
        name="H3K27ac",
        data_source=DataSourceConfig(
            type="bigwig",
            url="https://example.com/h3k27ac.bw",
        ),
    ))
])

# Remove by name pattern
result = await client.modify_tracks([
    RemoveTrackAction(selector=WireTrackSelector(name_regex="H3K.*"))
])

query_features(track_id, summarize=None) -> QueryFeaturesResult

Query features for a loaded track.

result = await client.query_features("track-id-123", summarize=True)
print(result.feature_count)

set_layout(tracks, locus=None) -> SetLayoutResult

Replace the entire track layout at once.

result = await client.set_layout(
    tracks=[
        TrackSessionConfig(type="ruler"),
        TrackSessionConfig(type="sequence"),
        TrackSessionConfig(
            type="annotation",
            name="GENCODE",
            data_source=DataSourceConfig(type="gencode", genome="hg38"),
        ),
    ],
    locus="chr1:1000-5000",
)

export_view(format, width=None) -> str | SessionConfig

Export the current view as SVG, PNG (returned as strings), or a session config object.

svg = await client.export_view("svg", width=1200)
session = await client.export_view("session")  # returns SessionConfig

manage_rois(action) -> ROI result

Manage regions of interest. The action type determines the operation.

from loom_client import AddROIAction, ROI, ListROIAction, FindROIAtLocusAction

# Add a region of interest
result = await client.manage_rois(AddROIAction(
    roi=ROI(id="roi-1", chr="chr17", start=7565097, end=7590856,
            name="TP53", color="rgba(255,0,0,0.3)"),
    set_name="Genes of interest",
))

# List all ROIs
result = await client.manage_rois(ListROIAction())

# Find ROIs overlapping a locus
result = await client.manage_rois(
    FindROIAtLocusAction(chr="chr17", start=7500000, end=7600000)
)

subscribe_events(events) -> SubscribeEventsResult

Subscribe to server-pushed events. Use ["*"] for all events or [] to unsubscribe.

await client.subscribe_events(["locuschange", "trackadded", "dataloaded"])

Event handling

Register callbacks for browser events:

def on_locus_change(data):
    locus = data["locus"]
    print(f"Moved to {locus['chr']}:{locus['start']}-{locus['end']}")

client.on("locuschange", on_locus_change)

# Wildcard handler receives (event_name, data)
client.on("*", lambda name, data: print(f"Event: {name}"))

# Unregister
client.off("locuschange", on_locus_change)

Available events: locuschange, trackadded, trackremoved, dataloaded, dataerror, rendererror, trackclick, trackhover, trackcontextmenu, trackorderchanged, roiadded, roiremoved, roichanged, roiclick, roicontextmenu

Error handling

Server errors raise CommandException:

from loom_client import CommandException

try:
    await client.navigate(locus="invalid")
except CommandException as e:
    print(e.code, e.message)

Development

pip install -e ".[dev]"
pytest

License

MIT