Tag Archives: k-mer

Sequencing studies on non-model organisms often interrogate both genomes and transcriptomes with massive amounts of short sequences. Such studies require de novo analysis tools and techniques...

Alternative splicing plays an important role in many cellular processes of eukaryotic organisms. The exon-inclusion ratio, also known as percent spliced in, is often regarded as one of the most effective measures of alternative splicing events. The existing methods for ...

De novo transcriptome assembly is an important technique for understanding gene expression in non-model organisms. Many de novo assemblers using the de Bruijn graph of a set of the RNA sequences rely on in-memory representation of this graph. However, current ...

The significant role of long non-coding RNAs (lncRNAs) in various cellular functions, such as gene imprinting, immune response, embryonic pluripotency, tumorogenesis, and genetic regulations, has been widely studied and reported in recent years. Several experimental and computational methods involving genome-wide ...