wheely-radiant 1.2.0

wheely-radiant: Reader for Radiant DIA results, compatible with wheely-mammoth.

Installation

This library requires Python 3.8+ and can be installed with pip:

pip install wheely-radiant

Basic Usage

This package provides a plugin for the Fulcrum Pipeline's read_existing search backend.

After installing wheely-radiant you may use the radiant engine to load existing Radiant DIA results:

[search]
backend = "read_existing"
engine = "radiant"
location = ["uri_one", "uri_two", ...]

(or similar in JSON or dict format)

Direct Usage

To load raw PSM scores from a Radiant Parquet (.radiantDIA) file, use the function read_radiant_features().

>>> from wheely_radiant import read_radiant_features
>>> ds = read_radiant_features("data/1.mzML.subset.radiantDIA")
>>> type(ds)
<class 'wheely.mammoth.dataset.PsmDataset'>
>>> ds.scores.select(ds.score_columns[1]).describe().toPandas()
  summary            cosineSim
0   count                 1000
1    mean   0.3947062000000001
2  stddev  0.15665395271892263
3     min               0.0315
4     max               0.9926

To read multiple files, pass a tuple, list, array, or series of file paths. Currently only full paths are supported; you can not pass wildcard ("glob") paths to the function.