Upload large number of files

I would like to move a large number of pdf files to a page for archiving. I’m using c-Panel and am wondering if I can use File Manager or Web Disk instead of using WP and uploading files one at a time. Also, if there a way I can set up folders on a page? I would like to have:

2009 – Folder
List of pdf’s related to this year, etc.
2008
Same.

Thanks.