recipe pypints

Peak Identifier for Nascent Transcripts Starts (PINTS)

Homepage:

https://pints.yulab.org

Developer docs:

https://github.com/hyulab/PINTS

License:

GPL / GPL-3.0-only

Recipe:

/pypints/meta.yaml

Links:

doi: 10.1038/s41587-022-01211-7

package pypints

Versions:

1.1.9-0,  1.1.8-0,  1.1.7-0,  1.1.6-1,  1.1.6-0,  1.1.4-0,  1.1.3-0,  1.1.0-0

Depends:

• bedtools

• biopython

• matplotlib-base

• numpy

• pandas

• pybedtools

• pybigwig

• pysam

• python

• requests

• samtools

• scipy

• statsmodels

• tabix

Required By:

Installation

With an activated Bioconda channel (see set-up-channels), install with:

conda install pypints

and update with:

conda update pypints

or use the docker container:

docker pull quay.io/biocontainers/pypints:<tag>

(see pypints/tags for valid values for <tag>)

Notes

The tool provides a set of executable files: `pints_caller` (for peak calling, the main program), `pints_visualizer` (for generating bigwig files from bam files), `pints_normalizer` (for normalizing bigwig files by spikein counts), and `pints_boundary_extender`.

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