finalReport: Summarizes all of the output files used in the GenomeStudio...
In buddha2490/BERGgeneQC: Processing GenomeStudio output in the BERG
Description
Usage
Arguments
Value
Author(s)
Examples
Description
This function summarizes much of the GenomeStudio output and the various QC statistics. It will return a summary table for each sample (useful for converting sample IDs), and a SNP summary table for each marker. Finally, a set of exclusion tables will be returned.
Usage
1
finalReport(home)
Arguments
home
Home directory location
Value
The function will save a list of three data frames to the Summary Reports subfolder
SummaryReport - Summary exclusion tables
SampleSummary - All QC metrics for each sample in the batch
SNPSummary - All QC metrics for the SNPs in the batch.
The function will also return the SummaryReport exclusion table for each batch
Author(s)
Brian Carter
Examples
1
2
datasrc <- file.path("s:/diet validation genotyping")
Report_12Feb2020 <- finalReport(datasrc)
buddha2490/BERGgeneQC documentation built on Feb. 18, 2020, 9:35 p.m.
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Description Usage Arguments Value Author(s) Examples
Description
This function summarizes much of the GenomeStudio output and the various QC statistics. It will return a summary table for each sample (useful for converting sample IDs), and a SNP summary table for each marker. Finally, a set of exclusion tables will be returned.
Usage
1 | finalReport(home)
|
Arguments
home |
Home directory location |
Value
The function will save a list of three data frames to the Summary Reports subfolder
SummaryReport - Summary exclusion tables
SampleSummary - All QC metrics for each sample in the batch
SNPSummary - All QC metrics for the SNPs in the batch.
The function will also return the SummaryReport exclusion table for each batch
Author(s)
Brian Carter
Examples
1 2 | datasrc <- file.path("s:/diet validation genotyping")
Report_12Feb2020 <- finalReport(datasrc)
|
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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