Yes! Snyk API & Web's API allows you to run Partial Scans on your targets. You can do so when you call the endpoint to start a vulnerability scan instead of needing to set it (permanently) on the target settings and then start a scan.
If you want to run Partial Scans through the API, you just need to send the reduced scope you want us to scan on your Start Scan request. Check our Developers documentation to know more!
Learn more about Partial Scans here.