git-annex has been around for quite some time, but never really gained momentum.
Git LFS is rather young and is already supported by GitHub, Bitbucket and GitLab.
Both tools handle binary files in git repositories. On the other hand, GitLab seems to have replaced git-annex with Git LFS within one year.
They do solve the same problem.
Let me start off with pro/con, then I'll move into technical differences.
git-annex works by creating a symlink in your repo that gets committed. The actual data gets stored into a separate backend (S3, rsync, and MANY others). It is written in haskell. Since it uses symlinks, windows users are forced to use annex in a much different manner, which makes the learning curve higher.
Pointer files are written. A git-lfs api is used to write the BLOBs to lfs. A special LFS server is required due to this. Git lfs uses filters so you only have to set up lfs once, and again when you want to specify which types of files you want to push to lfs.