In fact, you can connect to an SSL-encrypted connection with dplyr, and it is easy.
You just need to pass the parameters for your connection in a parameter dbnamelike this (this is a postgresql example):
db <- src_postgres(dbname="dbname=my_db sslcert=my_cert.crt sslkey=my_key.key sslmode=require", user="username", host="your.host.com")
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