Related papers: BacSoft: A Tool to Archive Data on Bacteria
We initiate the study of DNA-based distributed storage systems, where information is encoded across multiple DNA data storage containers to achieve robustness against container failures. In this setting, data are distributed over $M$…
In this article we report the release of a new program for batch processing and visualization of powder diffraction data. The program, which is free-of-charge for non-commercial use and can be obtained with its detailed documentation from…
Software Testing is a process to identify the quality and reliability of software, which can be achieved through the help of proper test data. However, doing this manually is a difficult task due to the presence of number of predicate nodes…
During genomics life science research, the data volume of whole genomics and life science algorithm is going bigger and bigger, which is calculated as TB, PB or EB etc. The key problem will be how to store and analyze the data with…
We present a Compression Tool, "GenBit Compress", for genetic sequences based on our new proposed "GenBit Compress Algorithm". Our Tool achieves the best compression ratios for Entire Genome (DNA sequences) . Significantly better…
Context: Blockchain-based Information Ecosystems (BBIEs) are a type of information ecosystem in which blockchain technology is used to provide a trust mechanism among parties and to manage shared business logic, breaking the traditional…
With the development of gene sequencing technology, an explosive growth of gene data has been witnessed. And the storage of gene data has become an important issue. Traditional gene data compression methods rely on general software like…
Software Heritage is the largest public archive of software source code and associated development history, as captured by modern version control systems. As of July 2023, it has archived more than 16 billion unique source code files coming…
Emerging DNA storage technologies use composite DNA letters, where information is represented by a probability vector, leading to higher information density and lower synthesis costs. However, it faces the problem of information leakage in…
This paper introduces the Bloscpack file format and the accompanying Python reference implementation. Bloscpack is a lightweight, compressed binary file-format based on the Blosc codec and is designed for lightweight, fast serialization of…
We introduce cellanneal, a python-based software for deconvolving bulk RNA sequencing data. cellanneal relies on the optimization of Spearman's rank correlation coefficient between experimental and computational mixture gene expression…
Motivation The Burrows-Wheeler transform (BWT) is the foundation of many algorithms for compression and indexing of text data, but the cost of computing the BWT of very large string collections has prevented these techniques from being…
Background SAMtools and BCFtools are widely used programs for processing and analysing high-throughput sequencing data. Findings The first version appeared online twelve years ago and has been maintained and further developed ever since,…
Software obfuscation techniques make code more difficult to understand, without changing its functionality. Such techniques are often used by authors of malicious software to avoid detection. Reverse Engineering of obfuscated code, i.e.,…
Organizations that make use of large quantities of information require the ability to store and process data from central locations so that the product can be shared or distributed across a heterogeneous group of users. However, recent…
Automated recognition and classification of bacteria species from microscopic images have significant importance in clinical microbiology. Bacteria classification is usually carried out manually by biologists using different shapes and…
A new Genetic Programming variant called Liquid State Genetic Programming (LSGP) is proposed in this paper. LSGP is a hybrid method combining a dynamic memory for storing the inputs (the liquid) and a Genetic Programming technique used for…
We have recently built a database system called BODHI, intended to store plant bio-diversity information. It is based on an object-oriented modeling approach and is developed completely around public-domain software. The unique feature of…
We present a theoretical discussion of a self-assembly scheme which makes it possible to use DNA to uniquely encode the composition and structure of micro- and nanoparticle clusters. These anisotropic DNA-decorated clusters can be further…
We address in this paper a new computational biology problem that aims at understanding a mechanism that could potentially be used to genetically manipulate natural insect populations infected by inherited, intra-cellular parasitic…