This release is a pre-release and may not be stable for production use.
CAS Tools
Note: CAS-Tools is currently under active development. Its behavior and interfaces may change as new features are added and existing ones are refined. Use with caution in production environments.
CAS-Tools is a comprehensive utility package designed to facilitate the effective use and manipulation of the Cell Annotation Schema (CAS) in single-cell transcriptomics data analysis.
Overview
The Cell Annotation Schema (CAS) addresses the inherent variability in annotating cell types/classes in single-cell transcriptomics datasets. While annotations lack the reasoning behind the choice of labels, CAS enables the recording of additional metadata about individual cell type annotations. This includes marker genes used as evidence and details of automated annotation transfer.
CAS-Tools simplifies the utilization of CAS by offering a set of programmatically accessible operations to:
- Integration with AnnData: Flatten CAS onto observations in AnnData format for seamless integration and analysis.
- Flatten Onto Dataframes: Decompose the schema into individual tables suitable for use in dataframes/TSVs.
- Validate Annotations: Validate annotations against the CAS standard to ensure compliance and consistency.
Installation
You can install CAS-Tools pypi package using pip:
pip install cas-tools
Getting Started
Please see related guides:
1 maintainer
Release files for cas-tools 0.0.1.dev14
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
| File | Size | Uploaded | |
|---|---|---|---|
| cas-tools-0.0.1.dev14.tar.gz | 20.2 kB | Details |
Built distribution (wheel)
| File | Interpreter | ABI | Platform | Reset |
|---|---|---|---|---|
| cas_tools-0.0.1.dev14-py3-none-any.whl | Python 3 | none | any | Details |
Total release size: 45.4 kB
Release files / cas-tools-0.0.1.dev14.tar.gz
| Download URL | cas-tools-0.0.1.dev14.tar.gz |
|---|---|
| Size | 20.2 kB |
| Tags | Source |
|
SHA-256 checksum How to use checksums |
fc72abd95c53db3ade05a183a53af705dfae6a02a2be7c702617f59b2ad2635e
|
|
BLAKE2b-256 checksum How to use checksums |
37568d87b34b0fa0bda9637b14c9c9e276111f70a087daf852bd12a33f7fff89
|
| Upload date | |
|
Uploaded using Trusted Publishing? What is trusted publishing? |
No |
| Uploaded via |
twine/4.0.2 CPython/3.9.18
|
Release files / cas_tools-0.0.1.dev14-py3-none-any.whl
| Download URL | cas_tools-0.0.1.dev14-py3-none-any.whl |
|---|---|
| Size | 25.2 kB |
| Tags | Python 3 |
|
SHA-256 checksum How to use checksums |
b31d633b52e9c56ec6a627fa6bfb08027ba9ecc380bbbddefe0370b128bee6d6
|
|
BLAKE2b-256 checksum How to use checksums |
1c4408fb4da0aa85fcfd760ddaac70ca351555e5cdb9c69fb22d7418a6e38426
|
| Upload date | |
|
Uploaded using Trusted Publishing? What is trusted publishing? |
No |
| Uploaded via |
twine/4.0.2 CPython/3.9.18
|
