Cypher AI for Analytical Chemistry

Process mass spec, HPLC, and flow data through reusable AI-built widgets and Git-backed pipelines.

Every analytical chemistry lab has a graveyard of one-off Python scripts and Excel macros, written in a hurry to process mass spec or HPLC output, and forgotten by the next sample set. Method development is fast; method reuse is painful. Cypher AI lets you describe an analysis once and turn it into a versioned, shareable tool that the rest of the team can run on tomorrow's plate.

How Cypher AI helps analytical chemistry teams

One connected platform for the work you do today and the data you generate tomorrow.

Reusable analysis widgets from natural language

"Read this Waters .raw file, integrate the BPC, and report retention times for the top 10 peaks." Cypher's agent writes the code, runs it, and packages the result as a widget your team can re-run on any future file.

Pipelines for routine instrument output

Set up Nextflow pipelines for batch processing of LC-MS, HPLC, GC, NMR, and flow cytometry output. Run them on schedule, on upload, or on demand — outputs are versioned and linked to source samples.

Sample tracking with chain of custody

LIMS tracks every sample from prep through injection through analysis. Full audit trail for QC and method-validation work where chain of custody matters.

Custom dashboards for QC and method monitoring

Build dashboards by description — "show me intra-day variability for system suitability across the last 30 runs" — and let the team monitor instrument health and method performance without spinning up Tableau.

AI-assisted spectral interpretation and reporting

Use Cypher's AI agent to draft method reports, compare spectra across runs, and flag anomalies that warrant human review. The agent works on your real data, not training data.

From raw instrument file to reportable result

1

Capture the sample and run

A method developer registers the sample, runs the instrument, and uploads the output file. Sample metadata is pre-filled from the run sheet via the AI agent.

2

Process automatically

A pre-built pipeline integrates peaks, calculates concentrations against the standard curve, and writes results back to the LIMS — linked to the originating sample.

3

Review and report

A reviewer dashboard surfaces system-suitability metrics, flags out-of-spec results, and produces method reports for QC sign-off — all reusable for the next batch.

4

Hand off to data consumers

Results are exposed to downstream teams (process, formulation, regulatory) through dashboards or direct export. Lineage from injection to reported value is preserved.

Stop rewriting the same analysis. Build it once, reuse it forever.

Other use cases

Drug Discovery

Run hit-to-lead campaigns with structured assay data, AI-assisted analysis, and full lineage from compound to result.

Synthetic Biology

Manage strain engineering, sequence design, and DBTL cycles with native ELN, LIMS, and AI-driven design tools.

Process Development

Track fermentation, scale-up, and bioreactor runs with structured data, monitoring dashboards, and AI analysis.

Regulatory & Quality

Maintain audit-ready protocols, track sample chain of custody, and generate compliance reports without burning a quarter on documentation.

CRO Orchestration

Submit, track, and integrate work with external service providers — synthesis, sequencing, screening — through one connected platform.

Antibody & Protein Engineering

Track variants, panels, and binding data across engineering campaigns — with sequence lineage and AI-built analysis.

Cell & Gene Therapy

Track constructs, vectors, and cell products with the lineage and audit trail that translational work demands.

Microbial Strain Engineering

Run strain-improvement campaigns with construct tracking, fermentation data, and reusable growth and titer analysis.

Assay & Method Development

Develop, validate, and operationalize assays — turning one-off methods into versioned, reusable, monitored workflows.