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 firstname.lastname@example.org 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
Example 2: Scatter plot of expression value vs. CN log2ratios with full sample meta data