AUGUSTUS

diff --git a/biblio/30466165.mdwn b/biblio/30466165.mdwn
new file mode 100644 (file)
index 0000000..d4ca13c
--- /dev/null
+++ b/biblio/30466165.mdwn
@@ -0,0 +1,10 @@
+[[!meta title="Predicting Genes in Single Genomes with AUGUSTUS."]]
+[[!tag genome annotation software]]
+
+Hoff KJ, Stanke M.
+
+Curr Protoc Bioinformatics. 2019 Mar;65(1):e57. doi:10.1002/cpbi.57
+
+Predicting Genes in Single Genomes with AUGUSTUS.
+
+[[!pmid 30466165 desc="Explain how to train AUGUSTUS for new species using transcriptome data."]]

diff --git a/tags/assembly.mdwn b/tags/assembly.mdwn
index 9f9bd5b649ddeba832aec2514a0fc9e9bcdca790..0dbe727567db1204798dec0ced87f39be7afb0fc 100644 (file)
--- a/tags/assembly.mdwn
+++ b/tags/assembly.mdwn
@@ -53,7 +53,11 @@ that most contact points are due to local (same-chromosome) proximity.  Version
 
 BUSCO ([[Simão and coll., 2015|biblio/26059717]], [[Waterhouse and coll.,
 2017|biblio/29220515]]) assesses the presence of evolutionary conserved single-copy
-genes in the assemblies.
+genes in the assemblies.  Seppey, Manni and Zdobnov EM ([[2019|biblio/31020564]])
+wrote a good introduction in _Methods Mol Biol_.
+
+BUSCO uses AUGUSTUS, and 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 and coll., 2017|biblio/29109544]]).