Documentation

Bioinformatics Toolbox

Read, analyze, and visualize genomic and proteomic data

Bioinformatics Toolbox™ provides algorithms and apps for Next Generation Sequencing (NGS), microarray analysis, mass spectrometry, and gene ontology. Using toolbox functions, you can read genomic and proteomic data from standard file formats such as SAM, FASTA, CEL, and CDF, as well as from online databases such as the NCBI Gene Expression Omnibus and GenBank®. You can explore and visualize this data with sequence browsers, spatial heatmaps, and clustergrams. The toolbox also provides statistical techniques for detecting peaks, imputing values for missing data, and selecting features.

You can combine toolbox functions to support common bioinformatics workflows. You can use ChIP-Seq data to identify transcription factors; analyze RNA-Seq data to identify differentially expressed genes; identify copy number variants and SNPs in microarray data; and classify protein profiles using mass spectrometry data.

High-Throughput Sequencing

Gene expression, transcription factor, and methylation analysis of NGS data, including RNA-Seq and ChIP-Seq

Microarray Analysis

Gene expression and genetic variant analysis of microarray data

Sequence Analysis

Genomic and proteomic sequences, alignment, and phylogenetics

Structural Analysis

Visualize and manipulate 3-D chemical structure of proteins and other biomolecules; RNA secondary structure prediction and visualization

Mass Spectrometry and Bioanalytics

Data from separation techniques that produce traces with peaks, including MS, LC/MS, NMR, chromatography, and electrophoresis