If you want to go big, DataLad is a suitable tool and can overcome shortcomings of Git and git-annex, if used correctly. Scaling up involves some thought, and in some instances compromise, though.
The general mechanism that allows scaling up is nesting datasets. This process can be done by hand or programmatically. Recursive operations ease working across a hierarchy of datasets and create a monorepo-like experience
Beware of accidentally placing to many (even small) files into Git’s version control in a single dataset!
.gitignorefiles can keep irrelevant files out of version control, the
explicitoption datalad run may be helpful, and custom largefile rules in
.gitattributesmay be necessary to override dataset configurations such as
Don’t consider only the limits of version control software, but also the limits of your file system. Too many files in single directories can become problematic even without version control.
If things go wrong, it’s not all lost. There are ways to clean up your dataset if it ever gets clogged, although they are the software equivalent of a blowtorch and should be handled with care.