ctxcore 0.2.0

Core functions for pycisTarget and the SCENIC tool suite

Core functions for pycisTarget and the SCENIC tool suite

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ctxcore is part of the SCENIC Suite of tools! See the main SCENIC website for additional information and a full list of tools available.

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Quickstart

ctxcore is available on PyPI and can be installed with pip.

$ pip install ctxcore

After installing ctxcore you can use it like any other Python module.

Here is a simple example:

import ctxcore
# Fill this section in with the common use-case.

The API Reference provides API-level documentation.

Change Log

Version History

0.2.0

• Remove unused RankingsDatabase classes and conversion functions.

• Add CisTargetDatabase class for reading rankings/scores for regions/genes from a cisTarget scores or rankings database (only Feather v2 format), which requires pyarrow >= 8.0.0 instead of <=0.17.1 needed for the old FeatherRankingDatabase class.

• Update FeatherRankingDatabase to use CisTargetDatabase to read cisTarget databases.

• Reformat code and update type annotations.

0.1.1

• Add support for reading rankings databases created by create_cisTarget_databases as the index column in the Feather file is “motifs” or “tracks” instead of “features”.

0.1.0

• Project created.