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Genotype specific transcriptome assemblies - Fasta files
dataset
posted on 2022-02-12, 11:19 authored by Diego Mauricio Riano PachonDiego Mauricio Riano Pachon, Felipe Vaz PeresFelipe Vaz PeresGenotype-specific de novo transcriptome assemblies from sugarcane RNASeq public datasets.
RAW RNASeq reads (paired-end and strand-specific) were downloaded from SRA's NCBI, cleaned with BBDuk and putative contaminant reads removed with ContFree-NGS. Clean reads were assembled into transcripts with Trinity using two kmers, 25 and 31. The two assemblies were merged using CD-HIT-EST at 100% identity and keeping strand orientation.
