@PhilippBayer @jrossibarra @MitchFeldmann A couple years ago we compared trees produced with SNPs (baseline) and presence/absence genes (brachy) and transcripts (barley). In brachy they recapitulated the 3 populations of the study, in barley we got differe
https://t.co/hpQHFeH2OS Analysis of Plant Pan-Genomes and Transcriptomes with GET_HOMOLOGUES-EST, a Clustering Solution for Sequences of the Same Species #PlantGenomics2020 #July 27-28, 2020 #MadridSpain #Horticulture #Agriculture plantgenomics@meetings
@szintri @ProteinUniverse This agrees with a limited #pangenome survey we did in Arabidopsis thaliana and barley at https://t.co/6wHcJX27kQ
Impressive #pangenome analysis of 3K rice cultivars at https://t.co/ZjFXyYOwYE Likely due to the massive data, they clustered seqs with CD-HIT, very efficient, although in our tests it struggles with split or poorly annotated genes, that jump introns: ht