MochiView

http://www.johnsonlab.ucsf.edu/mochi

Methods

linear multiple view multiple scale single focus segregated no abstraction no arrangement no interconnection segment sparse type point sparse type point contiguous type

Tool

Access Format: standalone app Supported Files: fasta Supported Files: bed Supported Files: other License: GNU Library/Lesser General Public License (LGPL)

Paper

MochiView: versatile software for genome browsing and DNA motif analysis

Homann OR, Johnson AD. MochiView: versatile software for genome browsing and DNA motif analysis. BMC Biol. bmcbiol.biomedcentral.com; 2010;8: 49.

Cited by: 106

Abstract

As high-throughput technologies rapidly generate genome-scale data, it becomes increasingly important to visually integrate these data so that specific hypotheses can be formulated and tested., , We present MochiView, a platform-independent Java software that integrates browsing of genomic sequences, features, and data with DNA motif visualization and analysis in a visually-appealing and user-friendly application., , While highly versatile, the software is particularly useful for organizing, exploring, and analyzing large genomic data sets, such as those from deep RNA sequencing, chromatin immunoprecipitation experiments (ChIP-Seq and ChIP-Chip), and transcriptional profiling. MochiView provides an extensive suite of utilities to identify and to explore connections between these data sets and short sequence motifs present in DNA or RNA.