RNA-Seq or Whole Transcriptome Shotgun Sequencing can be used to get qualitative and quantitative information about gene expression and regulation. A complete application consisting of several RNA-Seq specific tools provides you the visualization of expression profiles, listing of differently expressed genes and alternative splice variants.
Multiple Sequence Alignment is developed for arranging different sequences to find similarities and differences between them. The sequences can be extremely long (like a whole genome), differing in length, and containing insertions, deletions, and variants relative to another sequence. The MSA application enables the alignment of all the sequences in a given query set to ensure the identification of conserved sequence regions or the establishment of evolutionary relationships by constructing phylogenetic trees.
Further processing the result of the read alignment, genomic alterations are identified, these include single nucleotide polymorphisms (SNP) or single nucleotide variant (SNV) calls and InDel calls.