Quanta Image Sensor (QIS) is a single-photon detector designed for extremely low light imaging conditions. Majority of the existing QIS prototypes are monochrome based on single-photon avalanche diodes (SPAD). Passive color imaging has not been demonstrated with single-photon detectors due to the intrinsic difficulty of shrinking the pixel size and increasing the spatial resolution while maintaining acceptable intra-pixel cross-talk. In this paper, we present image reconstruction of the first color QIS with a resolution of 1024 × 1024 pixels, supporting both single-bit and multi-bit photon counting capability. Our color image reconstruction is enabled by a customized joint demosaicing-denoising algorithm, leveraging truncated Poisson statistics andvariance stabilizing transforms. Experimental results of the new sensor and algorithm demonstrate superior color imaging performance for very low-light conditions with a mean exposure of as low as a few photons per pixel in both real and simulated images.