According to the examples base64 encoding is directly supported, although I've not tested it myself. Take your base64 string (derived from a file or loaded with any other method, POST/GET, websockets etc), turn it to a binary with atob, and then parse this to getDocument on the PDFJS API likePDFJS.getDocument({data: base64PdfData});
Codetoffel answer does work just fine for me though.