ProSt: computing, storing and visualizing attributes of prokaryotic genomes
Prokaryotic organisms usually possess compact genomes, which are particularly suitable to complete sequencing with existing technologies, which led to an escalating accumulation of available genome data. In response to this ever-expanding repository of information, we introduce ProSt, a computational system designed for the batch computation, storage, and interactive visualization of the values of attributes of prokaryotic genomes. The system allows for parallel attribute value batch computation, dynamically designed to incrementally integrate new attribute values as additional genomes become available. ProSt is flexible permitting the definition of attributes by implementing attribute value computation plugins, supporting several languages (Python, Nim, Rust and Bash). This allows the system to continually evolve in accordance with changing research needs and developments. Additionally, our computation and storage systems maintain comprehensive metadata, thereby enabling data provenance tracking for the computed attribute values.
Code (0)
등록된 구현이 없습니다.
Tasks
AttributeSimilar Papers 제목 키워드 기반
ProtiGeno: a prokaryotic short gene finder using protein language models
Prokaryotic gene prediction plays an important role in understanding the biology of organisms and their function with applications in medicine and biotechnology. Although the current gene finders are highly sensitive in …
Language ModelingLanguage ModellingProtein Language ModelRestoring Vision through Retinal Implants -- A Systematic Literature Review
This work presents a bunched of promising technologies to treat blind people: the bionic eyes. The strategy is to combine a retina implant with software capable to interpret the information received. Along this line of t…
Systematic Literature ReviewHybrid Neural Autoencoders for Stimulus Encoding in Visual and Other Sensory Neuroprostheses
Sensory neuroprostheses are emerging as a promising technology to restore lost sensory function or augment human capabilities. However, sensations elicited by current devices often appear artificial and distorted. Althou…
Visualizing Bags of Vectors
The motivation of this work is two-fold - a) to compare between two different modes of visualizing data that exists in a bag of vectors format b) to propose a theoretical model that supports a new mode of visualizing dat…
A cross-modal generative model for incomplete and degraded prostate MRI with multicentre clinical validation
Missing or degraded sequences can limit prostate multiparametric MRI. We developed MSCNet, a sequence-conditioned cross-modal generative framework for reconstructing unavailable contrasts and restoring degraded acquisiti…