seismic db2ct

Purpose

seismic db2ct converts RNA secondary structure files from dot-bracket format to CT (connectivity table) format. Use it when a downstream tool requires CT notation.

Inputs

Dot-bracket files: One or more .db files. See Dot-bracket (DB): RNA secondary structures.

Outputs

CT files (.ct) written alongside the input dot-bracket files. See Connectivity Table (CT): RNA secondary structures.

Quick example

Convert a dot-bracket file to CT:

seismic db2ct struct.db

Options

--num-cpus N — multiprocessing; see Parallelize Tasks. --force — overwrite existing outputs.

The auto-generated Command Line Reference lists every option with its current default.

See also

seismic ct2db — the reverse conversion
Connectivity Table (CT): RNA secondary structures, Dot-bracket (DB): RNA secondary structures
seismic renumct — renumber positions in CT files