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10.1186/s13015-015-0052-6 http://scihub22266oqcxt.onion/10.1186/s13015-015-0052-6 C4454275!4454275 !26042154     free     free     free Warning: file_get_contents(https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pubmed&id=26042154 &cmd=llinks): Failed to open stream: HTTP request failed! HTTP/1.1 429 Too Many Requests in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 215 Warning: imagejpeg(C:\Inetpub\vhosts\kidney.de\httpdocs\phplern\26042154 .jpg): Failed to open stream: No such file or directory in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 117       Algorithms+Mol+Biol 2015 ; 10 (ä): 18 Nephropedia Template TP {{tp|p=26042154 |t=2015. GAML: genome assembly by maximum likelihood |pdf=|usr=}}{{26042154 }} gab.com Text GAML: genome assembly by maximum likelihood JO: Algorithms Mol Biol http://www.kidney.de/pget.php?&tw=1&pmid=26042154 #FOAvip BACKGROUND: Resolution of repeats and scaffolding of shorter contigs are critical parts of genome assembly. Modern assemblers usually perform such steps by heuristics, often tailored to a particular technology for producing paired or long reads. RESULTS: We propose a new framework that allows systematic combination of diverse sequencing datasets into a single assembly. We achieve this by searching for an assembly with the maximum likelihood in a probabilistic model capturing error rate, insert lengths, and other characteristics of the sequencing technology used to produce each dataset. We have implemented a prototype genome assembler GAML that can use any combination of insert sizes with Illumina or 454 reads, as well as PacBio reads. Our experiments show that we can assemble short genomes with N50 sizes and error rates comparable to ALLPATHS-LG or Cerulean. While ALLPATHS-LG and Cerulean require each a specific combination of datasets, GAML works on any combination. CONCLUSIONS: We have introduced a new probabilistic approach to genome assembly and demonstrated that this approach can lead to superior results when used to combine diverse set of datasets from different sequencing technologies. Data and software is available at http://compbio.fmph.uniba.sk/gaml. Twit Text FOAVip GAML: genome assembly by maximum likelihood ????Algorithms Mol Biol http://www.kidney.de/pget.php?&tw=1&pmid=26042154 #FOAvip Twit Text # Free Paper on # # # # # LINK http://www.kidney.de/pget.php?&tw=1&pmid=26042154 #FOAvip English Wikipedia <ref>{{Cite pmid|26042154 }}</ref> GAML: genome assembly by maximum likelihood #MMPMID26042154 Bo?a V ; Brejová B ; Vina? T Algorithms Mol Biol 2015[]; 10 (ä): 18 PMID26042154 show ga BACKGROUND: Resolution of repeats and scaffolding of shorter contigs are critical parts of genome assembly. Modern assemblers usually perform such steps by heuristics, often tailored to a particular technology for producing paired or long reads. RESULTS: We propose a new framework that allows systematic combination of diverse sequencing datasets into a single assembly. We achieve this by searching for an assembly with the maximum likelihood in a probabilistic model capturing error rate, insert lengths, and other characteristics of the sequencing technology used to produce each dataset. We have implemented a prototype genome assembler GAML that can use any combination of insert sizes with Illumina or 454 reads, as well as PacBio reads. Our experiments show that we can assemble short genomes with N50 sizes and error rates comparable to ALLPATHS-LG or Cerulean. While ALLPATHS-LG and Cerulean require each a specific combination of datasets, GAML works on any combination. CONCLUSIONS: We have introduced a new probabilistic approach to genome assembly and demonstrated that this approach can lead to superior results when used to combine diverse set of datasets from different sequencing technologies. Data and software is available at http://compbio.fmph.uniba.sk/gaml. äGAML: genome assembly by maximum likelihood (epmc).pdf DeepDyve Pubget Overpricing