pore-c-py 2.0.5

Analyse Pore-C data.

Pore_c_py

This package provides python scripts for working with Pore-C data

Use --help with to find detailed usage instructions.

Installation

Via pip:

pip install pore-c-py

Or via conda:

conda install -c epi2me-labs pore-c-py

Usage

$ pore-c-py --help
usage: pore_c_py [OPTIONS] COMMAND [ARGS].

Available subcommands are:
    digest       Digest concatemer sequences into monomers using a restriction enzyme.      
    annotate     Annotate alignments with a "walk", which simply
                 enumerates the alignment coordinates of the monomers comprising the
                 concatemer.

Examples

Digest concatemer sequences in to monomers:

pore-c-py digest <input concatemers bam> <restriction enzyme> <output monomers bam file name>

Parse a bam of aligned monomers:

pore-c-py annotate <input bam> <output bam file name>