Transcriptome

QSB is a computational tool developed for genetical genomics, an emerging field that combines quantitative genetics and genomics. QSB takes marker genotype data and expression microarray data of a segregating population as input and identify the significant QTLs that module gene expression. DNA... Platforms: Mac

AutoSOME is a new unsupervised multidimensional clustering method for identifying clusters of diverse shapes and sizes from large numerical datasets without prior knowledge of cluster number (BMC Bioinformatics, 11:117). Given the general nature of data clustering, AutoSOME has utility for a wide... Platforms: Mac

ALEXA-Seq is a method for using massively parallel paired-end transcriptome sequencing for 'alternative expression analysis'. Features . Alternative expression analysis . WTSS/RNA-Seq library quality assessment . Gene expression analysis . Novel transcript discovery . Visualization of... Platforms: *nix

Bio::SAGE::Comparison module compares data from serial analysis of gene expression (SAGE) libraries. SYNOPSIS use Bio::SAGE::Comparison; $sage = Bio::SAGE::Comparison->new(); This module provides several tools for comparing data generated from serial analysis of gene expression (SAGE)... Platforms: *nix

Bio::SAGE::DataProcessing module processes raw serial analysis of gene expression (SAGE) data. SYNOPSIS use Bio::SAGE::DataProcessing; $sage = Bio::SAGE::DataProcessing->new(); # open sequence and quality files open( READS, "library.fasta" ); open( QUAL, "library.qual.fasta" ); #... Platforms: *nix