Once you have jailbroken your iPhone or iPod Touch you are ready to customize it the way you want. To start with anything you need to have OpenSSH on your device. Read here about OpenSSH.
Before we jump into anything lets just understand what are we going to deal with.

What is SSH?
Your device has a filesystem in which every thing is stored, even the OS files. Transferring files to it can be done via accessing it via your computer. This is called SSH. It stands for Secure Shell.
The reason why you need it is, for adding files which are not available on Cydia or just beta testing from developers who have developed something but haven’t yet published it on any Repo.
How to SSH?
To get started, download any of these SSH clients. Listing just a few which are probably considered the best of the lot.
MAC - CyberDuck (via wifi/wireless) / iFuntastic (via USB/wired)
WINDOWS – WinSCP (via wifi/wireless) / iFunBox (via USB/wired)
How to Connect ?
Darn too easy!!! Just connect your iPod/iPhone. Go to Settings > General > Auto-Lock > Never.
Once done with setting up iPod/iPhone , if you a have wired SSH client just open it and you are done.
If using a wireless client, open the client, put in your device’s IP ,
Port : 22
Username : root
Password : alpine
// Connect //
Some-Must-Know-Locations
/var/mobile/Media/DCIM/100Apple – Saved Photos
/var/mobile/Media/DCIM/999Apple – Screenshots
/Library/Themes – Winterboard Themes
/var/mobile/Applications – App Store Applications
These are just some very must-to-know things abt SSH. If you have any other query drop a comment would try to help.
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