Filezilla, has a cool feature where you can set up your FTP/SFTP accounts to use synchronised browsing. What this means is that if your local and remote directory structures have the same structure (which they usually do when doing things like uploading web sites), then it will browse both your local and remote directories together.
This is set in Site Manager, select the relevant site, and look in the advanced tab. Make sure you also set your default local directory and default remote directories so they match up to give you the same “root”. That is, they are at the same level for synchronised browsing.