MinMax Radon Barcodes for Medical Image Retrieval

Content-based medical image retrieval can support diagnostic decisions by clinical experts. Examining similar images may provide clues to the expert to remove uncertainties in his/her final diagnosis. Beyond conventional feature descriptors, binary features in different ways have been recently proposed to encode the image content. A recent proposal is "Radon barcodes" that employ binarized Radon projections to tag/annotate medical images with content-based binary vectors, called barcodes. In this paper, MinMax Radon barcodes are introduced which are superior to "local thresholding" scheme suggested in the literature. Using IRMA dataset with 14,410 x-ray images from 193 different classes, the advantage of using MinMax Radon barcodes over \emph{thresholded} Radon barcodes are demonstrated. The retrieval error for direct search drops by more than 15\%. As well, SURF, as a well-established non-binary approach, and BRISK, as a recent binary method are examined to compare their results with MinMax Radon barcodes when retrieving images from IRMA dataset. The results demonstrate that MinMax Radon barcodes are faster and more accurate when applied on IRMA images.Comment: To appear in proceedings of the 12th International Symposium on Visual Computing, December 12-14, 2016, Las Vegas, Nevada, US

Data Fingerprinting -- Identifying Files and Tables with Hashing Schemes

Master's thesis in Computer scienceINTRODUCTION: Although hash functions are nothing new, these are not limited to cryptographic purposes. One important field is data fingerprinting. Here, the purpose is to generate a digest which serves as a fingerprint (or a license plate) that uniquely identifies a file. More recently, fuzzy fingerprinting schemes — which will scrap the avalanche effect in favour of detecting local changes — has hit the spotlight. The main purpose of this project is to find ways to classify text tables, and discover where potential changes or inconsitencies have happened. METHODS: Large parts of this report can be considered applied discrete mathematics — and finite fields and combinatorics have played an important part. Rabin’s fingerprinting scheme was tested extensively and compared against existing cryptographic algorithms, CRC and FNV. Moreover, a self-designed fuzzy hashing algorithm with the preliminary name No-Frills Hash has been created and tested against Nilsimsa and Spamsum. NFHash is based on Mersenne primes, and uses a sliding window to create a fuzzy hash. Futhermore, the usefullness of lookup tables (with partial seeds) were also explored. The fuzzy hashing algorithm has also been combined with a k-NN classifier to get an overview over it’s ability to classify files. In addition to NFHash, Bloom filters combined with Merkle Trees have been the most important part of this report. This combination will allow a user to see where a change was made, despite the fact that hash functions are one-way. Large parts of this project has dealt with the study of other open-source libraries and applications, such as Cassandra and SSDeep — as well as how bitcoins work. Optimizations have played a crucial role as well; different approaches to a problem might lead to the same solution, but resource consumption can be very different. RESULTS: The results have shown that the Merkle Tree-based approach can track changes to a table very quickly and efficiently, due to it being conservative when it comes to CPU resources. Moreover, the self-designed algorithm NFHash also does well in terms of file classification when it is coupled with a k-NN classifyer. CONCLUSION: Hash functions refers to a very diverse set of algorithms, and not just algorithms that serve a limited purpose. Fuzzy Fingerprinting Schemes can still be considered to be at their infant stage, but a lot has still happened the last ten years. This project has introduced two new ways to create and compare hashes that can be compared to similar, yet not necessarily identical files — or to detect if (and to what extent) a file was changed. Note that the algorithms presented here should be considered prototypes, and still might need some large scale testing to sort out potential flaw

Transform Based And Search Aware Text Compression Schemes And Compressed Domain Text Retrieval

In recent times, we have witnessed an unprecedented growth of textual information via the Internet, digital libraries and archival text in many applications. While a good fraction of this information is of transient interest, useful information of archival value will continue to accumulate. We need ways to manage, organize and transport this data from one point to the other on data communications links with limited bandwidth. We must also have means to speedily find the information we need from this huge mass of data. Sometimes, a single site may also contain large collections of data such as a library database, thereby requiring an efficient search mechanism even to search within the local data. To facilitate the information retrieval, an emerging ad hoc standard for uncompressed text is XML which preprocesses the text by putting additional user defined metadata such as DTD or hyperlinks to enable searching with better efficiency and effectiveness. This increases the file size considerably, underscoring the importance of applying text compression. On account of efficiency (in terms of both space and time), there is a need to keep the data in compressed form for as much as possible. Text compression is concerned with techniques for representing the digital text data in alternate representations that takes less space. Not only does it help conserve the storage space for archival and online data, it also helps system performance by requiring less number of secondary storage (disk or CD Rom) accesses and improves the network transmission bandwidth utilization by reducing the transmission time. Unlike static images or video, there is no international standard for text compression, although compressed formats like .zip, .gz, .Z files are increasingly being used. In general, data compression methods are classified as lossless or lossy. Lossless compression allows the original data to be recovered exactly. Although used primarily for text data, lossless compression algorithms are useful in special classes of images such as medical imaging, finger print data, astronomical images and data bases containing mostly vital numerical data, tables and text information. Many lossy algorithms use lossless methods at the final stage of the encoding stage underscoring the importance of lossless methods for both lossy and lossless compression applications. In order to be able to effectively utilize the full potential of compression techniques for the future retrieval systems, we need efficient information retrieval in the compressed domain. This means that techniques must be developed to search the compressed text without decompression or only with partial decompression independent of whether the search is done on the text or on some inversion table corresponding to a set of key words for the text. In this dissertation, we make the following contributions: (1) Star family compression algorithms: We have proposed an approach to develop a reversible transformation that can be applied to a source text that improves existing algorithm\u27s ability to compress. We use a static dictionary to convert the English words into predefined symbol sequences. These transformed sequences create additional context information that is superior to the original text. Thus we achieve some compression at the preprocessing stage. We have a series of transforms which improve the performance. Star transform requires a static dictionary for a certain size. To avoid the considerable complexity of conversion, we employ the ternary tree data structure that efficiently converts the words in the text to the words in the star dictionary in linear time. (2) Exact and approximate pattern matching in Burrows-Wheeler transformed (BWT) files: We proposed a method to extract the useful context information in linear time from the BWT transformed text. The auxiliary arrays obtained from BWT inverse transform brings logarithm search time. Meanwhile, approximate pattern matching can be performed based on the results of exact pattern matching to extract the possible candidate for the approximate pattern matching. Then fast verifying algorithm can be applied to those candidates which could be just small parts of the original text. We present algorithms for both k-mismatch and k-approximate pattern matching in BWT compressed text. A typical compression system based on BWT has Move-to-Front and Huffman coding stages after the transformation. We propose a novel approach to replace the Move-to-Front stage in order to extend compressed domain search capability all the way to the entropy coding stage. A modification to the Move-to-Front makes it possible to randomly access any part of the compressed text without referring to the part before the access point. (3) Modified LZW algorithm that allows random access and partial decoding for the compressed text retrieval: Although many compression algorithms provide good compression ratio and/or time complexity, LZW is the first one studied for the compressed pattern matching because of its simplicity and efficiency. Modifications on LZW algorithm provide the extra advantage for fast random access and partial decoding ability that is especially useful for text retrieval systems. Based on this algorithm, we can provide a dynamic hierarchical semantic structure for the text, so that the text search can be performed on the expected level of granularity. For example, user can choose to retrieve a single line, a paragraph, or a file, etc. that contains the keywords. More importantly, we will show that parallel encoding and decoding algorithm is trivial with the modified LZW. Both encoding and decoding can be performed with multiple processors easily and encoding and decoding process are independent with respect to the number of processors