XplorSeq: A software environment for integrated management and phylogenetic analysis of metagenomic sequence data

Background: Advances in automated DNA sequencing technology have accelerated the generation of metagenomic DNA sequences, especially environmental ribosomal RNA gene (rDNA) sequences. As the scale of rDNA-based studies of microbial ecology has expanded, need has arisen for software that is capable of managing, annotating, and analyzing the plethora of diverse data accumulated in these projects. Results: XplorSeq is a software package that facilitates the compilation, management and phylogenetic analysis of DNA sequences. XplorSeq was developed for, but is not limited to, highthroughput analysis of environmental rRNA gene sequences. XplorSeq integrates and extends several commonly used UNIX-based analysis tools by use of a Macintosh OS-X-based graphical user interface (GUI). Through this GUI, users may perform basic sequence import and assembly steps (base-calling, vector/primer trimming, contig assembly), perform BLAST (Basic Local Alignment and Search Tool; [1-3]) searches of NCBI an...

• Type: Journal
• Year: 2008
• Where: BMCBI
• Authors: Daniel N. Frank
• Keywords: BMCBI 2008, Dna Sequences, Metagenomic Dna Sequences, Sequence Data