From: Charles Plessy Date: Wed, 1 Jun 2022 09:20:42 +0000 (+0900) Subject: SyRI X-Git-Url: https://source.charles.plessy.org/?a=commitdiff_plain;h=f459ff533ede4a9a31f1f77587ae9950b646ceb1;p=source%2F.git SyRI --- diff --git a/biblio/31842948.mdwn b/biblio/31842948.mdwn new file mode 100644 index 00000000..dbf41f32 --- /dev/null +++ b/biblio/31842948.mdwn @@ -0,0 +1,10 @@ +[[!meta title="Goel M, Sun H, Jiao WB, Schneeberger K. SyRI: finding genomic rearrangements and local sequence differences from whole-genome assemblies."]] +[[!tag software genome synteny]] + +Goel M, Sun H, Jiao WB, Schneeberger K. + +Genome Biol. 2019 Dec 16;20(1):277. doi:10.1186/s13059-019-1911-0 + +SyRI: finding genomic rearrangements and local sequence differences from whole-genome assemblies. + +[[!pmid 31842948 desc="Identifies inversions, translocations, duplications, etc., but requires that the two genomes have the same number of chromosomes and that they are oriented the same direction."]] diff --git a/tags/assembly.mdwn b/tags/assembly.mdwn index 987f4ede..efd9bd6c 100644 --- a/tags/assembly.mdwn +++ b/tags/assembly.mdwn @@ -91,7 +91,8 @@ AUGUSTUS can be trained for a new species with transcriptome data, as explained by [[Hoff and Stanke, 2018|biblio/30466165]]. A reference assembly can be used to search for structural variants in a different -individual, for instance with NanoSV ([[Cretu Stancu and coll., 2017|biblio/29109544]]). +individual, for instance with NanoSV ([[Cretu Stancu and coll., 2017|biblio/29109544]]) +or SyRI ([[Goel and coll., 2019|biblio/31842948]]). In [[2003, Kent and coll.|biblio/14500911]] aligned the human and mouse genome together using the BLASTZ and AXTCHAIN software.