From: Charles Date: Thu, 11 Apr 2019 04:28:07 +0000 (+0900) Subject: Racon X-Git-Url: https://source.charles.plessy.org/?a=commitdiff_plain;h=1fad1eae32ed2796de34525a4014269246b15bee;p=setup%2F.git Racon --- diff --git a/biblio/28100585.mdwn b/biblio/28100585.mdwn new file mode 100644 index 00000000..1b49fcae --- /dev/null +++ b/biblio/28100585.mdwn @@ -0,0 +1,10 @@ +[[!meta title="Fast and accurate de novo genome assembly from long uncorrected reads."]] +[[!tag genome assembly software]] + +Vaser R, Sović I, Nagarajan N, Šikić M. + +Genome Res. 2017 May;27(5):737-746. doi:10.1101/gr.214270.116 + +Fast and accurate de novo genome assembly from long uncorrected reads. + +[[!pmid 28100585 desc="Racon can be used to correct contigs or to correct raw reads."]] diff --git a/tags/assembly.mdwn b/tags/assembly.mdwn index 7c2b19be..cd060d20 100644 --- a/tags/assembly.mdwn +++ b/tags/assembly.mdwn @@ -11,11 +11,13 @@ read length is satisfactory. The Flye assembler ([[Kolmogorov and coll, bioRxiv 2018|biblio/10.1101_247148]]) creates an A-Bruijn (assembly) graph from draft contigs using long error-prone reads, untangles the graph by resolving repeats, -and then uses it to refine the contings and increase their accuracy. +and then uses it to refine the contings and increase their accuracy. (The +predecessor of Flye, ABruijn, was reported by [[Istace and coll. +(2017)|biblio/28369459]] to be able to assemble mitochondrial genomes, unlike +Canu and other assemblers.) -The predecessor of Flye, ABruijn, was reported by [[Istace and coll. -(2017)|biblio/28369459]] to be able to assemble mitochondrial genomes (unlike -Canu and other assemblers). +After assembly, the contigs can be further polished with Racon ([[Vaser, Sović, +Nagarajan and Šikić, 2017|biblio/28100585]]). When coverage is too low for efficient reference-free assembly, related references can be used as a guide. The Ragout software ([[Kolmogorov and