Shrink-Mgf#

Processes: .mgf

Returns: .mgf

This step is mainly for debugging purposes. It reduces the amount of compounds in the provided .mgf files. This reduces calculation time downstream.

Requirements#

There is no external requirement for this step.

Arguments#

To step requires the following arguments (if combined with DictIO):

compounds_per_file: Number of compounds per file.

Data processing#

The step reads through all provided files and only returns the first BEGIN IONS to END IONS blocks.

Usage#

Using Dict

from expectmine.steps.steps.shrink_mgf import ShrinkMgf

pipeline.add_step(ShrinkMgf, {"compounds_per_file": 5})

Using DictIo

from expectmine.steps.steps.shrink_mgf import ShrinkMgf
from expectmine.io.io.dict_io import DictIo

pipeline.add_step(ShrinkMgf, DictIo({"compounds_per_file": 5}))

Using CliIo

from expectmine.steps.steps.shrink_mgf import ShrinkMgf
from expectmine.io.io.cli_io import CliIo

pipeline.add_step(
    ShrinkMgf,
    CliIo()
)

Further Info#

Shrink-Mgf Class
- ShrinkMgf