Niles Canyon is a canyon in the San Francisco Bay Area formed by Alameda Creek, known for its heritage railroad and silent movie history. The canyon is largely in an unincorporated area of Alameda County, while the western portion of the canyon lies within the city limits of Fremont and Union City. The stretch of State Route 84 known as Niles Canyon Road traverses the length of the canyon from the Niles district of Fremont to the unincorporated town of Sunol. Two railroads also follow the same route down the canyon from Sunol to Niles: the old Southern Pacific track along the north side, now the Niles Canyon Railway, and the newer Union Pacific track a little to the south. At the west end of the canyon are the ruins of the Vallejo Flour Mill, which dates to 1853.

Alameda Creek is a large perennial stream in the San Francisco Bay Area. The creek runs for 45 miles (72 km) from a lake northeast of Packard Ridge to the eastern shore of San Francisco Bay by way of Niles Canyon and a flood control channel. Along its course, Alameda Creek provides wildlife habitat, water supply, a conduit for flood waters, opportunities for recreation, and a host of aesthetic and environmental values. The creek and three major reservoirs in the watershed are used as water supply by the San Francisco Public Utilities Commission, Alameda County Water District and Zone 7 Water Agency. Within the watershed can be found some of the highest peaks and tallest waterfall in the East Bay, over a dozen regional parks, and notable natural landmarks such as the cascades at Little Yosemite and the wildflower-strewn grasslands and oak savannahs of the Sunol Regional Wilderness. After an absence of half a century, ocean-run steelhead trout are able to return to Alameda Creek to mingle with remnant rainbow trout populations. Completion of a series of dam removal and fish passage projects, along with improved stream flows for cold-water fish and planned habitat restoration, enable steelhead trout and Chinook salmon to access up to 20 miles (32 km) of spawning and rearing habitat in Alameda Creek and its tributaries. The first juvenile trout migrating downstream from the upper watershed through lower Alameda Creek toward San Francisco Bay was detected and documented in April 2023.