DOI . ORG {
}
Detected CMS Systems:
- Wordpress (1 occurrences)
- Hubspot (1 occurrences)
We began analyzing https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1005944, but it redirected us to https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1005944. The analysis below is for the second page.
Title[redir]:
No title found...
Description:
The MUMmer system and the genome sequence aligner nucmer included within it are among the most widely used alignment packages in genomics. Since the last major release of MUMmer version 3 in 2004, it has been applied to many types of problems including aligning whole genome sequences, aligning reads to a reference genome, and comparing different assemblies of the same genome. Despite its broad utility, MUMmer3 has limitations that can make it difficult to use for large genomes and for the very large sequence data sets that are common today. In this paper we describe MUMmer4, a substantially improved version of MUMmer that addresses genome size constraints by changing the 32-bit suffix tree data structure at the core of MUMmer to a 48-bit suffix array, and that offers improved speed through parallel processing of input query sequences. With a theoretical limit on the input size of 141Tbp, MUMmer4 can now work with input sequences of any biologically realistic length. We show that as a result of these enhancements, the nucmer program in MUMmer4 is easily able to handle alignments of large genomes; we illustrate this with an alignment of the human and chimpanzee genomes, which allows us to compute that the two species are 98% identical across 96% of their length. With the enhancements described here, MUMmer4 can also be used to efficiently align reads to reference genomes, although it is less sensitive and accurate than the dedicated read aligners. The nucmer aligner in MUMmer4 can now be called from scripting languages such as Perl, Python and Ruby. These improvements make MUMer4 one the most versatile genome alignment packages available.
Title[redir]:
No title found...
Description:
The MUMmer system and the genome sequence aligner nucmer included within it are among the most widely used alignment packages in genomics. Since the last major release of MUMmer version 3 in 2004, it has been applied to many types of problems including aligning whole genome sequences, aligning reads to a reference genome, and comparing different assemblies of the same genome. Despite its broad utility, MUMmer3 has limitations that can make it difficult to use for large genomes and for the very large sequence data sets that are common today. In this paper we describe MUMmer4, a substantially improved version of MUMmer that addresses genome size constraints by changing the 32-bit suffix tree data structure at the core of MUMmer to a 48-bit suffix array, and that offers improved speed through parallel processing of input query sequences. With a theoretical limit on the input size of 141Tbp, MUMmer4 can now work with input sequences of any biologically realistic length. We show that as a result of these enhancements, the nucmer program in MUMmer4 is easily able to handle alignments of large genomes; we illustrate this with an alignment of the human and chimpanzee genomes, which allows us to compute that the two species are 98% identical across 96% of their length. With the enhancements described here, MUMmer4 can also be used to efficiently align reads to reference genomes, although it is less sensitive and accurate than the dedicated read aligners. The nucmer aligner in MUMmer4 can now be called from scripting languages such as Perl, Python and Ruby. These improvements make MUMer4 one the most versatile genome alignment packages available.
Matching Content Categories {📚}
- Technology & Computing
- Education
- Books & Literature
Content Management System {📝}
What CMS is doi.org built with?
Doi.org operates using WORDPRESS.
But there are also traces of other content systems on the page (hubspot).
Traffic Estimate {📈}
What is the average monthly size of doi.org audience?
🏙️ Massive Traffic: 50M - 100M visitors per month
Based on our best estimate, this website will receive around 76,079,999 visitors per month in the current month.
check SE Ranking
check Ahrefs
check Similarweb
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check Semrush
How Does Doi.org Make Money? {💸}
We don't see any clear sign of profit-making.
Earning money isn't the goal of every website; some are designed to offer support or promote social causes. People have different reasons for creating websites. This might be one such reason. Doi.org might be cashing in, but we can't detect the method they're using.
Wordpress Themes and Plugins {🎨}
What WordPress theme does this site use?
It is strange but we were not able to detect any theme on the page.
What WordPress plugins does this website use?
It is strange but we were not able to detect any plugins on the page.
Keywords {🔍}
nucmer, genome, mummer, reference, alignment, sequence, sequences, reads, human, suffix, alignments, genomes, data, article, query, view, array, align, large, program, memory, google, scholar, output, aligning, matches, plos, time, table, size, bowtie, illumina, chimpanzee, aligners, larger, multiple, bwa, default, index, aligned, pacbio, pmid, pubmedncbi, results, original, image, thaliana, aligner, input, lastz,
Topics {✒️}
org/legacy/publications/library/proceedings/tcl96/full_papers/beazley genomics computer hardware health cookies plos complex draft genomes global variables primary computational steps larger plant theoretical computer science systems target popular systems long high-error-rate sequences nature genetics genome biology molecular biology align long high-error-rate genetics short low-error-rate microscopic animal animal genomes open access article computer memory data-driven discovery initiative future directions computer ram compressed burrows-wheeler transform lightweight suffix-sorting library long high-error-read sequence alignment/map format plant contemporary server-class computers computer fast gapped-read alignment original reference subsequences mummer4 software distribution basic local alignment original output format horizontal gene transfer open source license amd opteron system thaliana reference genome open software arabidopsis reference genomes demand larger amounts random-access memory lock-free fifo queue 32-core opteron system ncbi sra https betty moore foundation
Social Networks {👍}(3)
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