streaming-pileupy 0.3.1

Create multi-sample text-pileups of streaming SAM/BAM files.

Streaming Pileupy

Create multi-sample text-pileups of streaming SAM/BAM files.

• Free software: MIT license

• Documentation: https://streaming-pileupy.readthedocs.io.

Features

Streaming Pileupy creates a pileup of a single SAM/BAM file using the read group SM identifier to split reads by sample:

spileup input.bam sample_names.txt

Missing features

• Base quality filtering

• Read beginning and end annotations in pileup output

• Deletion annotations in pileup output

• Filter output bases on BED file

Credits

This package was created with Cookiecutter and the audreyr/cookiecutter-pypackage project template.

History

0.3.0 (2020-05-05)

• Add support for basic pileup functionality

0.2.1 (2020-05-04)

• First release on PyPI.