NAME

tombo - identification of modified nucleotides from raw nanopore sequencing data

SYNOPSIS

tombo [-h] [-v] {resquiggle,preprocess,filter,detect_modifications,text_output,build_model,plot} ...

DESCRIPTION

Tombo is a suite of tools primarily for the identification of modified nucleotides from nanopore sequencing data.

Tombo also provides tools for the analysis and visualization of raw nanopore signal.

Tombo command groups (additional help available within each command group):

resquiggle

Re-annotate raw signal with genomic alignment from existing basecalls.

preprocess

Pre-process nanopore reads for Tombo processing.

filter

Apply filter to Tombo index file for specified criterion.

detect_modifications

Perform statistical testing to detect non-standard nucleotides.

text_output

Output Tombo results in text files.

build_model

Create canonical and alternative base Tombo models.

plot

Save plots to visualize raw nanopore signal or testing results.

AUTHOR

This manpage was written by Andreas Tille for the Debian distribution and
can be used for any other usage of the program.