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For pricing and inquiries, send an email to sales@omicsoft.com.

5001 Weston Parkway, Suite 201
Cary, NC 27513
US

888-259-6642

Overview

Omicsoft is the leading provider of Next Generation Sequencing, Cancer Genomics, Immunology, and Bioinformatics solutions for Next Generation Sequencing Data and Gene Expression Analysis.

Exciting Updates and Latest News

Keeping you up-to-date with the latest in NGS, Bioinformatics Analysis, and cancer genomics with blogs on Array Suite, OncoLand (TCGA and more), ImmunoLand, and more.

[Feature Review] Analyze "Land" Genomic Data with the R API

Vivian Zhang

Omicsoft's current Lands, OncoLand and ImmunoLand, provide users pre-configured data content covering a variety of genomic data types. The rich visualization capacity and customizable filters empower Lands to be comprehensive OMIC data hubs. Many of our customers process their own in-house data into our Land format, either themselves, or by contracting us to run the datasets for them (we do everything from RNA-Seq to WGS data so contact us at sales@omicsoft.com if you would like to contract out some data processing.)

That said, in the world of research, there are always talented and creative bioinformaticans that would like to explore the data in their own way. Our Land R API function provides a way to query Land data using R. 

The R API function uses Oshell API functions to connect to ArrayServer and run the Land Text Dump function on a list of genes or/and on a list of samples. User can run additional analysis based on the land dump data in R and create more data visualizations, customized to their liking.  Once the data is in R, the analyst has the world of Bioconductor and more with which to work with for their analysis.  Enjoy!

Example 1: Scatter plot of expression value vs. CN log2ratios within specific genes and samples

An example to draw scatter plot of gene expression vs. CN log2ratios for genes MDM, BRAF, EGFR, and FGF12

An example to draw scatter plot of gene expression vs. CN log2ratios for genes MDM, BRAF, EGFR, and FGF12

Example 2: Scatter plot of expression value vs. CN log2ratios with full sample meta data