I highly doubt all of your yeast is on the bottom. Is it perfectly clear? It should be fine to keg now, and if you're not too careful, you will kick up some yeast when siphoning into the keg. Got any Pics?
Secondary #1: Mead Experiment
Secondary #2: Welch's Wine Experiment
Kegged: Organic APA, Kick the Bucket APA, Pub Ale, Argentine Cascade IPA, ESB
Bottled: Wild Raspberry Cider, Cyser, Insane IPA, Lady Bug Pumpkin Ale, Cider, Christmas Cider.
RIP: Raspberry Hefeweizen, Hoppy Lager, California Common, Oktoberfest, Hefeweizen, Melted tubing brown ale, Honey blonde ale