Processes | Genetics | Flip Strand

Flip Strand
The Flip Strand process compares the major and minor allele for SNPs in an Annotation Data Set to a reference annotation data set and flips the strand (in other words switches both alleles to their complements) for non-A/T and non-C/G SNPs that have the complementary alleles in the reference set. A/T and C/G SNPs can be flipped as well.
What do I need?
Two Annotation Data Set s are required to run this process . An annotation data set contains information, such as gene identity or chromosomal location, for each of the markers. Annotation data sets are tall data sets; each row corresponds to a different marker. The two data sets must describe the same markers.
The annotation data set used in this example, the samplemap_orig.sas7bdat data set, was computer generated and identifies markers, location and gene identities. A portion of this data set is illustrated below.
A second reference Annotation Data Set is also required. This data set is generated from a separate experiment (from a reference population , for example, or from the same population but using a different machine or protocol) and serves as a standard for evaluating the first experiment. The reference annotation data set used in this example, the samplemap_ref.sas7bdat data set, was computer generated and identifies markers, location and gene identities. A portion of this data set is illustrated below.
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For detailed information about the files and data sets used or created by JMP Life Sciences software, see Files and Data Sets .
Output/Results
The output generated by this process is summarized in a Tabbed report. Refer to the Flip Strand output documentation for detailed descriptions and guides to interpreting your results.