A comparison of tools for the simulation of genomic next-generation sequencing data
Computer simulation of genomic data has become increasingly popular for assessing and
validating biological models or for gaining an understanding of specific data sets. Several …
validating biological models or for gaining an understanding of specific data sets. Several …
A broad survey of DNA sequence data simulation tools
S Alosaimi, A Bandiang, N van Biljon… - Briefings in …, 2020 - academic.oup.com
In silico DNA sequence generation is a powerful technology to evaluate and validate
bioinformatics tools, and accordingly more than 35 DNA sequence simulation tools have …
bioinformatics tools, and accordingly more than 35 DNA sequence simulation tools have …
[HTML][HTML] A bioinformatics pipeline for a tick pathogen surveillance multiplex amplicon sequencing assay
LM Osikowicz, A Hojgaard, S Maes, RJ Eisen… - Ticks and tick-borne …, 2023 - Elsevier
Abstract The Centers for Disease Control and Prevention's national tick and tick-borne
pathogen surveillance program collects information to better understand the regional …
pathogen surveillance program collects information to better understand the regional …
Efficient compression of genomic sequences
The number of genomic sequences is growing substantially. Besides discarding part of the
data, the only efficient possibility for coping with this trend is data compression. We present …
data, the only efficient possibility for coping with this trend is data compression. We present …
Cryfa: a secure encryption tool for genomic data
The ever-increasing growth of high-throughput sequencing technologies has led to a great
acceleration of medical and biological research and discovery. As these platforms advance …
acceleration of medical and biological research and discovery. As these platforms advance …
[HTML][HTML] In silico proficiency testing for clinical next-generation sequencing
EJ Duncavage, HJ Abel, JD Pfeifer - The Journal of Molecular Diagnostics, 2017 - Elsevier
Quality assurance for clinical next-generation sequencing (NGS)–based assays is difficult
given the complex methods and the range of sequence variants such assays can detect. As …
given the complex methods and the range of sequence variants such assays can detect. As …
An alignment-free method to find and visualise rearrangements between pairs of DNA sequences
Species evolution is indirectly registered in their genomic structure. The emergence and
advances in sequencing technology provided a way to access genome information, namely …
advances in sequencing technology provided a way to access genome information, namely …
[HTML][HTML] GTO: a toolkit to unify pipelines in genomic and proteomic research
Next-generation sequencing triggered the production of a massive volume of publicly
available data and the development of new specialised tools. These tools are dispersed …
available data and the development of new specialised tools. These tools are dispersed …
On the approximation of the Kolmogorov complexity for DNA sequences
The Kolmogorov complexity furnishes several ways for studying different natural processes
that can be expressed using sequences of symbols from a finite alphabet, such as the case …
that can be expressed using sequences of symbols from a finite alphabet, such as the case …
MGS-Fast: metagenomic shotgun data fast annotation using microbial gene catalogs
Background Current methods used for annotating metagenomics shotgun sequencing
(MGS) data rely on a computationally intensive and low-stringency approach of mapping …
(MGS) data rely on a computationally intensive and low-stringency approach of mapping …