CommIN: Semantic Image Communications as an Inverse Problem with INN-Guided Diffusion Models

Joint source-channel coding schemes based on deep neural networks (DeepJSCC) have recently achieved remarkable performance for wireless image transmission. However, these methods usually focus only on the distortion of the reconstructed signal at the receiver side with respect to the source at the transmitter side, rather than the perceptual quality of the reconstruction which carries more semantic information. As a result, severe perceptual distortion can be introduced under extreme conditions such as low bandwidth and low signal-to-noise ratio. In this work, we propose CommIN, which views the recovery of high-quality source images from degraded reconstructions as an inverse problem. To address this, CommIN combines Invertible Neural Networks (INN) with diffusion models, aiming for superior perceptual quality. Through experiments, we show that our CommIN significantly improves the perceptual quality compared to DeepJSCC under extreme conditions and outperforms other inverse problem approaches used in DeepJSCC.

BioCoder: A Benchmark for Bioinformatics Code Generation with Contextual Pragmatic Knowledge

Pre-trained language models like ChatGPT have significantly improved code generation. As these models scale up, there is an increasing need for the output to handle more intricate tasks. Moreover, in bioinformatics, generating functional programs poses additional notable challenges due to the amount of domain knowledge, the need for complicated data operations, and intricate functional dependencies between the operations. Here, we present BioCoder, a benchmark developed to evaluate existing pre-trained models in generating bioinformatics code. In relation to function-code generation, BioCoder covers potential package dependencies, class declarations, and global variables. It incorporates 1026 functions and 1243 methods in Python and Java from GitHub and 253 examples from the Rosalind Project. BioCoder incorporates a fuzz-testing framework for evaluation, and we have applied it to evaluate many models including InCoder, CodeGen, CodeGen2, SantaCoder, StarCoder, StarCoder+, InstructCodeT5+, and ChatGPT. Our detailed analysis of these models emphasizes the importance of domain knowledge, pragmatic code generation, and contextual understanding. Our dataset, benchmark, Docker images, and scripts required for testing are all available at https://github.com/gersteinlab/biocoder.