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General Omicsoft software related questions
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There were 9 articles found in this category:
 How do you disable signed fold change generation?
By default, Array Studio uses signed fold changes as this is considered a visually appealing format. Up regulated signals are indicated by numbers ranging from 1 to infinity. Down regulated signals are indicated by numbers ranging from -1 to –infinity. This global option can be changed ...
- How do I cite the Array Studio Software?
The suggested citation for the Array Studio software is: "The analysis for this paper was generated using Array Studio software. Array Studio, Array Viewer and Array Server and all other Omicsoft products or service names are registered trademarks or trademarks of Omicsoft Corporation., Research ...
- How do you enable per-test based multiplicity adjustments in Array Studio
To enable the global option of per-test based multiplicity adjustment, select from the Array studio menu Tools | Preferences then under the general tab select Statistics: In the Default options window, place a check in the box for Adjust p-values on a per-test basis:
- Why do I get an out of memory error?
If you are on a 64-bit system it is unlikely that you will get an out of memory error. However, on 32-bit systems, Array Studio (and other Windows programs) can only use 1.2-1.4G of memory at a time, so it is possible that for large data manipulations you may get this error. However, if this er ...
- After uploading my chip files I discovered that a few of the chips need to be renamed. How do I do that?
The easiest way to rename chip files once they have already been uploaded into Array Studio is to modify the design table. Select from the menu Table Menu | Rows | Row Properties. Next choose the Design table and select OK. In the left pane select the chip you want to change, then in the r ...
- I've run an analysis, but now I don't see any data (my view window is blank). What happened?
Check your View Controller for any filters. As a convenience, any filters you had on your dataset upon which you ran your analysis will propagate down to the newly created datasets or tables. So, if you think you should've generated data and you don't see it, check your filters first and remov ...
- How do I change Omicsoft's home folder location and why?
The Omicsoft home folder's location can be changed by going to the Tools menu | Preferences | Advanced | Omicsoft home directory. This is useful if the user wishes to off-load this directory to another hard drive, instead of the default location (My Documents/Omicsoft). This might be necessary ...
- Is Estimate the same as a fold change? If not, what is a Fold Change?
No, the estimate is not the same as the fold change. Many users are more comfortable dealing on a linear scale, rather than a log scale. A Fold Change, as defined by many users, and Omicsoft, is the unlogged estimate. So, on a log scale of 2, if the estimate is 2, then the Fold Change is 2^2 or ...
- What are variables? What are observations?
In Array Studio, a variable is a collection of single measurement from multiple subjects. A variable is a row in a dataset. So, for Affymetrix chips, a variable is a probeset or a SNP. An observation is a collection of a multiple measurements for a single subject. An observation is a column in a ...
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