barley_pangenes
Pangenes are clusters of gene models/alleles found in barley assemblies in a similar genomic location.
Click on chromosomes below to browse pangenes and display multiple sequence alignments of encoded proteins. Read our blog post for more information.
| chr1H | chr2H | chr3H | chr4H | chr5H | chr6H | chr7H | chrUn |
Raw files
You can download the raw pangene matrices and get more details at https://github.com/eead-csic-compbio/barley_pangenes.
Citation
Protocol and files first published at:
Contreras-Moreira B, Saraf S, Naamati G et al (2023) GET_PANGENES: calling pangenes from plant genome alignments confirms presence-absence variation. Genome Biol 24, 223. https://doi.org/10.1186/s13059-023-03071-z
Multiple sequence alignments produced with clustal-omega v1.2.4:
Sievers F, Wilm A, Dineen D, et al (2011) Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega. Mol Syst Biol 7:539. https://doi.org/10.1038%2Fmsb.2011.75