Results for "r"
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The automated reconstruction of genome sequences in ancient genome analysis is a multifaceted process. EAGER encompasses both state-of-the-art tools for each step as well...egrated solution in an easily accessible format. https://genomebiology.bi...2764 days ago
- Cutadapt finds and removes adapter sequences, primers, poly-A tails and other types of unwanted sequence fro...our high-throughput sequencing reads. Cutadapt helps with the...y. It can also modify and filter reads in various ways. Adapte...ted tests and is available under the terms of the MIT license....
2760 days ago
Understanding Greedy Algorithms
Learning greedy algo for biologist. https://www.topcoder.com/community/data-science/data-science-tutorials/greedy-is-good/ This webpage i...m/examples.php?id=59 http://www.cs.rpi.edu/~magdon/ps/conference/s...g/AssemblyClass/01.%20Assembly%20Intro.pdf http://lsl.sinica.edu.t...2762 days ago
- ...imum-Weight Matching able to produce high-quality scaffolds from NGS data (reads and contigs...ng directory -- this is the directory where ScaffMatch files...Comma separated list of) either .fastq or .sam file(s) corres...p; -l) Log file - where to store the logs. Optional argument....
2761 days ago
CISA: Contig Integrator for Sequence Assembly
A plethora of algorithmic assemblers have been proposed for the d...the optimal assembly for diverse species. Optimizing various...yield an assembly of high accuracy. In this study, we employ...enerated by the state-of-the-art assemblers and the hybrid as...2759 days ago
BIMA V3: an aligner customized for mate pair library sequencing
Summary: Mate pair library sequencing is an effective and economical method for detecting genomic structural variants and chromosomal abnormalities. Unfortunately, the ma...hallenging and time consuming process for most NGS alignment p...d alignment complexity. We describe an algorithm that is up to...2760 days ago
MyPro: A seamless pipeline for automated prokaryotic genome assembly and annotation
MyPro is an improved genomics software pipeline for prokaryotic genomes. MyPro is user-friendly and requires minimal programming skills. High-quality...can be obtained with ease. It performed better than de novo assemblers and c...2759 days ago
E-MEM: Efficient computation of Maximal Exact Matches
E-MEM is a C++/OpenMP program designed to efficiently compute MEMs between large genomes. See the README file for instr...tions on how to use E-MEM. E-MEM source code The source code can b...t computation of Maximal Exact Matches for very large genomes, Bioi...2759 days ago
- Comparative genomics remains a pivotal strategy to study the evolution of gene organization, and this primacy i...sequences available in public repositories. Despite this grow...nts remain restricted to two or three genomes at a time, thus...greatly facilitating the interpretation of the data. Availa...
2758 days ago
e-RGA: enhanced Reference Guided Assembly of Complex Genomes
Next Generation Sequencing has totally changed genomics: we are able to produce huge amounts of data at an incredibl...anger sequencing. Despite this, some old problems have become even more d...sign tools able to assemble, de novo, an organism sequenced with short re...2755 days ago
