wetlab

Basic wetlab entities [source].

Install and mount wetlab in a new instance:

>>> pip install wetlab
>>> lamin init --storage ./test-wetlab --modules bionty,wetlab

Import the package:

>>> import wetlab as wl

Create records:

>>> biosample = wl.Biosample(
...    name="Sample 1",
... ).save()

Basic registries:

Experiment(*args, **kwargs)	Models a wetlab experiment.
Biosample(*args, **kwargs)	Models a specimen derived from an organism, such as tissue, blood, or cells.
Techsample(*args, **kwargs)	Models technical samples which represent a processed or derived sample in a lab created from raw biological materials.
Donor(*args, **kwargs)	Models a donor that provides biospecimens for research.

Perturbation registries:

GeneticPerturbation(*args, **kwargs)	Models genetic perturbations such as CRISPR.
Biologic()	Proteins, peptides, antibodies, enzymes, growth factors, etc.
Compound()	Models a (chemical) compound such as a drug.
CompoundPerturbation(*args, **kwargs)	Models compound perturbations such as drugs.
EnvironmentalPerturbation(*args, **kwargs)	Models environmental perturbations such as heat, acid, or smoke perturbations.
CombinationPerturbation(*args, **kwargs)	Combination of several perturbations.

Auxiliary registries:

Well(*args, **kwargs)	Models a well in a wetlab wetlab.Experiment that is part of a microplate.
PerturbationTarget(*args, **kwargs)	Models perturbation targets such as Gene, Pathway, and Protein.

Types:

GeneticPerturbationSystem	alias of Literal['CRISPR-Cas9', 'CRISPR-Cas13', 'CRISPRi', 'CRISPRa', 'shRNA', 'siRNA', 'transgene', 'transient-transfection']
BiologicType	alias of Literal['protein', 'peptide', 'antibody', 'enzyme', 'growth-factor', 'cytokine', 'hormone', 'vaccine', 'oligonucleotide', 'co-culture']