The Center for Security Policy is here to correct those claims.
Yesterday they released a study that should put things in perspective. Citing FBI statistics, policy analysts found no connection between supposedly hostile attitudes towards Muslims and an uptick in hate crimes. In 2009, for example, there were 132 hate crimes committed against Muslims, compared to 1,132 committed against Jews. Prior to 2009, there were six hate crimes against Jews for every one against Muslims. In fact, the number has decreased since 2001.
There certainly are people out there who dislike Muslims because of bias, but no more so than other religions. Maybe even less so.
Read the full report here.