Supported Instruments

What Can This Skill Convert?

Any instrument data that maps to an Allotrope schema can be converted. The skill uses a tiered parsing approach:

Native allotropy parsers (listed below) - Highest fidelity, validated against vendor-specific formats
Flexible fallback parser - Handles any tabular data (CSV, Excel, TXT) by mapping columns to ASM fields
PDF extraction - Extracts tables from PDFs, then applies flexible parsing

If your instrument isn't listed below, the skill can still convert it as long as your data contains recognizable measurement fields (sample IDs, values, units, timestamps, etc.) that map to an ASM technique schema.

Instruments with Native Allotropy Parsers

The following instruments have optimized parsers in the allotropy library with their Vendor enum values.

Cell Counting

Instrument	Vendor Enum	File Types
Beckman Coulter Vi-CELL BLU	`BECKMAN_VI_CELL_BLU`	.csv
Beckman Coulter Vi-CELL XR	`BECKMAN_VI_CELL_XR`	.txt, .xls, .xlsx
ChemoMetec NucleoView NC-200	`CHEMOMETEC_NUCLEOVIEW`	.xlsx
ChemoMetec NC-View	`CHEMOMETEC_NC_VIEW`	.xlsx
Revvity Matrix	`REVVITY_MATRIX`	.csv

Spectrophotometry (UV-Vis)

Instrument	Vendor Enum	File Types
Thermo Fisher NanoDrop One	`THERMO_FISHER_NANODROP_ONE`	.csv, .xlsx
Thermo Fisher NanoDrop Eight	`THERMO_FISHER_NANODROP_EIGHT`	.tsv, .txt
Thermo Fisher NanoDrop 8000	`THERMO_FISHER_NANODROP_8000`	.csv
Unchained Labs Lunatic	`UNCHAINED_LABS_LUNATIC`	.csv, .xlsx
Thermo Fisher Genesys 30	`THERMO_FISHER_GENESYS30`	.csv

Plate Readers (Multi-mode, Absorbance, Fluorescence)

Instrument	Vendor Enum	File Types
Molecular Devices SoftMax Pro	`MOLDEV_SOFTMAX_PRO`	.txt
PerkinElmer EnVision	`PERKIN_ELMER_ENVISION`	.csv
Agilent Gen5 (BioTek)	`AGILENT_GEN5`	.xlsx
Agilent Gen5 Image	`AGILENT_GEN5_IMAGE`	.xlsx
BMG MARS (CLARIOstar)	`BMG_MARS`	.csv, .txt
BMG LabTech Smart Control	`BMG_LABTECH_SMART_CONTROL`	.csv
Thermo SkanIt	`THERMO_SKANIT`	.xlsx
Revvity Kaleido	`REVVITY_KALEIDO`	.csv
Tecan Magellan	`TECAN_MAGELLAN`	.xlsx

ELISA / Immunoassay

Instrument	Vendor Enum	File Types
Molecular Devices SoftMax Pro	`MOLDEV_SOFTMAX_PRO`	.txt
MSD Discovery Workbench	`MSD_WORKBENCH`	.txt
MSD Methodical Mind	`METHODICAL_MIND`	.xlsx
BMG MARS	`BMG_MARS`	.csv, .txt

qPCR / PCR

Instrument	Vendor Enum	File Types
Applied Biosystems QuantStudio	`APPBIO_QUANTSTUDIO`	.xlsx
Applied Biosystems QuantStudio Design & Analysis	`APPBIO_QUANTSTUDIO_DESIGNANALYSIS`	.xlsx, .csv
Bio-Rad CFX Maestro	`BIORAD_CFX_MAESTRO`	.csv, .xlsx
Roche LightCycler	`ROCHE_LIGHTCYCLER`	.txt

Chromatography (HPLC, LC)

Instrument	Vendor Enum	File Types
Waters Empower	`WATERS_EMPOWER`	.xml
Thermo Fisher Chromeleon	`THERMO_FISHER_CHROMELEON`	.xml
Agilent ChemStation	`AGILENT_CHEMSTATION`	.csv

Electrophoresis

Instrument	Vendor Enum	File Types
Agilent TapeStation	`AGILENT_TAPESTATION`	.csv
PerkinElmer LabChip	`PERKIN_ELMER_LABCHIP`	.csv

Flow Cytometry

Instrument	Vendor Enum	File Types
BD Biosciences FACSDiva	`BD_BIOSCIENCES_FACSDIVA`	.xml
FlowJo	`FLOWJO`	.wsp

Solution Analysis

Instrument	Vendor Enum	File Types
Roche Cedex BioHT	`ROCHE_CEDEX_BIOHT`	.xlsx
Beckman Coulter Biomek	`BECKMAN_COULTER_BIOMEK`	.csv

Auto-Detection Patterns

The skill attempts to identify instrument type from file contents using these patterns:

Vi-CELL BLU

Column headers: "Sample ID", "Viable cells (x10^6 cells/mL)", "Viability (%)"
File structure: CSV with specific column order

Vi-CELL XR

Column headers: "Sample", "Total cells/ml", "Viable cells/ml"
Multiple export formats supported

NanoDrop

Column headers: "Sample Name", "Nucleic Acid Conc.", "A260", "A280"
260/280 and 260/230 ratio columns

Plate Readers (General)

Well identifiers (A1-H12 pattern)
"Plate", "Well", "Sample" columns
Block-based structure with metadata headers

ELISA

Standard curve data with concentrations
OD/absorbance readings
Sample/blank/standard classification

Using Vendor Enums

from allotropy.parser_factory import Vendor
from allotropy.to_allotrope import allotrope_from_file

# List all supported vendors
for v in Vendor:
    print(f"{v.name}: {v.value}")

# Convert file
asm = allotrope_from_file("data.csv", Vendor.BECKMAN_VI_CELL_BLU)

Checking Supported Status

from allotropy.parser_factory import get_parser

# Check if a vendor/file combo is supported
try:
    parser = get_parser(Vendor.BECKMAN_VI_CELL_BLU)
    print("Supported!")
except Exception as e:
    print(f"Not supported: {e}")

/instrument-data-to-allotrope

referencessupported_instruments.md