We recommend using scp (secure copy) or sftp (secure file transfer) for file transfers.
S* commands will authenticate your connection to a remote host and will encrypt all files transferred to protect them.
rcp, rsync, ftp, etc will transmit passwords & files in plaintext unless explicitly instructed to use ssh for transfers.
All file transfer programs will be initiated from your destination machine/desktop. The transfer program will establish a connection to a remote unix host where you will be prompted for your CS login and password. Upon successful login a connection/conduit will be established between the two machines and all files requested will be transfered.