cstag 0.0.4

Convert cstag format from short to long, vice versa

cstag

cstag is a Python module to manipulate minimap2's CS tag.

• cstag.shorten(): to convert a cs tag from long to short format
• cstag.lengthen(): to convert a cs tag from short to long format
• cstag.to_consensus(): to generate a consensus cs tag from multiple cs tags
• cstag.to_html(): to output html report (under-development:construction_worker:)
• cstag.to_mids(): to convert cs tag into compressed MIDS format (under-development:construction_worker:)

Installation

From PyPI:

pip install cstag

Example

"""
Convert short format of cs tag into long format
"""
import cstag
cs = "cs:Z::4*ag:3"
cigar = "8M"
seq = "ACGTACGT"
cstag.lengthen(cs, cigar, seq)
# cs:Z:=ACGT*ag=CGT