Marlon,
my suggestion would be to tar up the directory to a file:
tar cvf <newfile>.tar <your_directory>
then (optional), compress it:
compress <newfile>.tar
and then ftp it (using binary mode) to where you require it. On completion, cd to the appropriate directory and uncompress/untar it to create a copy of your original directory:
uncompress <newfile>.tar.Z
tar -xvf <newfile>.tar
HTH.