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raw.bin.count.for.360.gDNA.samples.zip (29.0 MB)
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| Name | Modified | Size | Downloads / Week |
|---|---|---|---|
| Parent folder | |||
| paramters | 2014-05-23 | ||
| plotChromosome_function.r | 2014-09-12 | 3.8 kB | |
| example_code_to_plot_50kb_trace.r | 2014-09-12 | 1.1 kB | |
| readme.txt | 2014-05-23 | 1.6 kB | |
| raw.count.input.example.txt | 2014-05-23 | 917.0 kB | |
| normalized.count.output.example.txt | 2014-05-23 | 1.6 MB | |
| data_normalization.r | 2014-05-23 | 3.5 kB | |
| cyto.RData | 2014-05-23 | 5.5 kB | |
| 1p36_final.pdf | 2014-05-23 | 26.1 kB | |
| Totals: 9 Items | 2.6 MB | 0 | |
The data and script stored in this repository are companion information for the manuscript entitled "Detection of Fetal Subchromosomal Abnormalities by Sequencing Circulating Cell-Free DNA from Maternal Plasma" authors: Chen Zhao, John Tynan, Mathias Ehrich, Gregory Hannum, Ron McCullough, Juan-Sebastian Saldivar, Paul Oeth, Dirk van den Boom, Cosmin Deciu* Corresponding author cdeciu@sequenom.com The R scripts included in this package are: data_normalization.r The example code to perform the two step data normalization algorithm described in the paper. The R script for the normalization function and its paramter files are stored at the paramter folder. plotChromosome_function.r: The function to plot 50kb normalized bin count and the ideograms. cyto.RData: The R dataframe used by plotChromosome_function.r to get the banding coordinates. example_code_to_plot_50kb_trace.r: The example R code to take the normalized bin count and plot 50kb traces. The code has been tested with R version 2.15.0 platform x86_64-pc-mingw32 arch x86_64 os mingw32 system x86_64, mingw32 status major 2 minor 15.0 year 2012 month 03 day 30 svn rev 58871 language R version.string R version 2.15.0 (2012-03-30)
