alterlab-lab-integrations

Plugin alterlab-lab-integrations from marketplace alterlab-academic-skills in AlterLab-IEU/AlterLab-Academic-Skills. Commands read from the repo's manifest — 6 days ago.

Skills (9)

• alterlab-benchling

  Writes Benchling integration code against the official benchling-sdk — registry DNA/protein entities, inventory, ELN entries, workflow tasks, Benchling Apps, Data Warehouse SQL — and validates every create/update payload offline by building the SDK's typed models and serializing them, with no Benchl

• alterlab-dnanexus

  Develops genomics apps, applets and workflows for the DNAnexus platform with the dxpy Python SDK and dx CLI — writes dxapp.json and entry-point code, lints the spec offline, runs entry points locally in dxpy's debug harness, and checks WDL for dxCompiler with miniwdl, all without an account; buildin

• alterlab-ginkgo-cloud

  Prepares and validates Ginkgo Bioworks Cloud Lab orders with no account — picks the right protocol (cell-free protein expression validation/optimization, fluorescent pixel art, and the newer catalog), validates the inputs offline (DNA length/format for CFPS, image-to-7-strain-palette mapping for pix

• alterlab-labarchive

  Writes and validates LabArchives ELN integration code and analyses exported notebooks with no account — reviews labapi/labarchives-py usage, drafts entry HTML and upload plans, and audits a LabArchives notebook export (folder tree or backup) offline for structure and provenance gaps with scripts/ana

• alterlab-latchbio

  Authors bioinformatics pipelines with the Latch SDK — @workflow/@task decorators, LatchFile/LatchDir I/O, CPU/GPU task sizing, the Latch Registry, and Nextflow/Snakemake wrapping — and validates them with no account, type-checking the decorators and workflow graph at import, running task functions l

• alterlab-omero

  Works with microscopy image data via the OMERO Python API (BlitzGateway) — writes and validates the integration code, analyses local OME-TIFF/microscopy pixels, ROIs and channels with tifffile offline, and browses or pulls from public OMERO servers (the IDR JSON API, webgateway and OME-Zarr) with no

• alterlab-opentrons

  Writes liquid-handling protocols for Opentrons OT-2 and Flex robots using the official Opentrons Protocol API v2, with full access to v2 features for production-grade, officially compatible protocols. Use when authoring or running protocols specifically for Opentrons hardware. For multi-vendor autom

• alterlab-protocolsio

  Discovers, reads, drafts and cites protocols.io protocols with no account — finds public protocols and their DOIs through Crossref (prefix 10.17504), reads a public protocol's full steps and materials from its public web page/PDF via WebFetch, and drafts new protocols in protocols.io's step/material

• alterlab-pylabrobot

  Programs lab automation with PyLabRobot, a vendor-agnostic async Python framework that drives Hamilton STAR/Vantage, Tecan EVO, and Opentrons OT-2 liquid handlers plus plate readers, heater shakers, incubators, centrifuges, pumps, scales, and thermocyclers, with a chatterbox simulator and browser vi

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