nrTEplants

Release 0.3 (Jun2020) the nrTEplants library of plant transposable elements which minimizes overlap with sequence containing protein domains known to be part of NLR genes. This sequence set was computed after combining TREP, SINEbase, REdat, RepetDB, EDTArice, EDTAmaize, SoyBaseTE, TAIR10TE, SunflowerTE, MelonTE, RosaTE and SUNREP and obtaining a non-redundant collection with GET_HOMOLOGUES-EST.

Check the code and documentation at https://github.com/Ensembl/plant_tools/tree/master/bench/repeat_libs

Citation: Contreras-Moreira,B., Filippi,C.V., Naamati,G., Girón,C.G., Allen,J.E. and Flicek,P. (2021) Efficient masking of plant genomes by combining kmer counting and curated repeats Genomics. Plant Genome https://doi.org/10.1002/tpg2.20143