.. _odgi flip:

#########
odgi flip
#########

Flip (reverse complement) paths to match the graph.

SYNOPSIS
========

**odgi flip** [**-i, --input**\ =\ *FILE*] [*OPTION*]…

DESCRIPTION
===========

The odgi flip command flips paths around if they tend to be in the reverse complement orientation relative to the graph.

OPTIONS
=======

MANDATORY OPTIONS
--------------

| **-i, --input**\ =\ *FILE*
| Load the succinct variation graph in ODGI format from this *FILE*. The file name usually ends with *.og*. It also accepts GFAv1 or GFAz (compressed GFA), but the on-the-fly conversion to the ODGI format requires additional time!

| **-o, --out**\ =\ *FILE*
| Write the graph with flipped paths to *.og*.

Threading
---------

| **-t, --threads**\ =\ *N*
| Number of threads to use for parallel operations.

Processing Information
----------------------

| **-P, --progress**
| Print information about the operations and the progress to stderr.

Program Information
-------------------

| **-h, --help**
| Print a help message for **odgi flip**.

..
	EXIT STATUS
	===========

	| **0**
	| Success.

	| **1**
	| Failure (syntax or usage error; parameter error; file processing
	  failure; unexpected error).

	BUGS
	====

	Refer to the **odgi** issue tracker at
	https://github.com/pangenome/odgi/issues.