System and method for adaptive quality driven compression of genomic data using neural networks
A system for recovering information lost during genomic data compression employs a quality-driven approach using neural networks. The system evaluates the importance of genomic regions through a quality analysis engine that assigns quality scores, while a rate control engine determines optimal compression rates based on these scores. A specialized neural network recovers lost information from correlated genomic datasets that have undergone lossy compression, utilizing recurrent layers for feature extraction and a channel-wise transformer with attention to capture complex relationships between data channels. The neural network architecture incorporates a deblocking network that combines these components to effectively reconstruct compressed data. A decoder receives and decompresses the data, then processes it through the neural network to recover information lost during compression. This adaptive system ensures critical genomic information is preserved while maximizing compression efficiency.
1. A system for recovering information lost during data compression, comprising:
a computing system comprising at least a memory and a processor;
a quality analysis engine configured to evaluate importance of genomic regions and assign quality scores;
a rate control engine configured to determine compression rates based on the quality scores;
a neural network configured to recover lost information from a plurality of correlated genomic datasets that have been compressed with lossy compression, wherein the neural network comprises:
a plurality of recurrent layers for feature extraction;
a channel-wise transformer with attention to capture inter-channel dependencies; and
a deblocking network composed of the recurrent layers and channel-wise transformer; and
a decoder configured to:
receive compressed data comprising the plurality of correlated genomic datasets;
decompress the compressed data; and
process the decompressed data using the neural network to recover information lost during lossy compression.
2. The system of claim 1 , wherein the quality analysis engine comprises:
a feature analysis subsystem configured to analyze genomic sequences and compute relevant metrics;
a quality assessment subsystem configured to assign importance scores to regions; and
a training subsystem configured to handle model training and updates.
3. The system of claim 1 , wherein the rate control engine comprises:
a rate selection subsystem configured to process quality scores and choose compression rates; and
a resource management subsystem configured to monitor system resources and optimize resource usage.
4. The system of claim 1 , wherein the neural network is configured for multi-task learning across different types of genomic data.
5. The system of claim 1 , wherein the compressed data comprises multiple data channels, each channel associated with a different correlated genomic dataset.
6. The system of claim 1 , wherein the channel-wise transformer implements a self-attention mechanism to capture relationships between elements regardless of their positional distance.
7. The system of claim 1 , further comprising a metadata engine configured to:
track compression rates per region;
maintain quality scores; and
collect performance data.
8. A method for recovering information lost during genomic data compression, comprising the steps of:
evaluating importance of genomic regions and assigning quality scores;
determining compression rates based on the quality scores;
training a neural network to recover lost information from a plurality of correlated genomic datasets that have been compressed with lossy compression, wherein the neural network comprises:
a plurality of recurrent layers for feature extraction;
a channel-wise transformer with attention to capture inter-channel dependencies; and
a deblocking network composed of the recurrent layers and channel-wise transformer;
receiving compressed data comprising the plurality of correlated genomic datasets;
decompressing the compressed data; and
processing the decompressed data using the neural network to recover information lost during lossy compression.
9. The method of claim 8 , wherein evaluating importance of genomic regions comprises:
analyzing genomic sequences and computing relevant metrics;
assigning importance scores to regions; and
validating quality scores against reference datasets.
10. The method of claim 8 , wherein determining compression rates comprises:
processing quality scores;
selecting compression rates based on importance scores; and
optimizing resource usage during compression.
11. The method of claim 8 , wherein the neural network performs multi-task learning across different types of genomic data.
12. The method of claim 8 , wherein the compressed data comprises multiple data channels, each channel associated with a different correlated genomic dataset.
13. The method of claim 8 , wherein the channel-wise transformer implements a self-attention mechanism to capture relationships between elements regardless of their positional distance.
14. The method of claim 8 , further comprising:
tracking compression rates per region;
maintaining quality scores; and
collecting performance data.