There is currently no way to make a partial payment toward an invoice. This is something that I do at my company a lot and find myself splitting bills up so I can send down/partial payments.
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Hi Tyler! Thank you for your post. This feature is on our product roadmap and should be implemented sometime this year.
In the meantime, one solution (which you may have already considered) could be to upload the invoice multiple times and adjust the $ amount on the invoices, allowing you to pay it in batches. This would still create multiple invoices that would sync over to your ERP, but it might help you to track the payments more closely.
I don’t have a specific timeline for when to expect this feature, but the good news is, it’s coming! 
Charlotte