CheckAbnChr: CheckAbnChr
In mbertalan/iPsychCNV: iPsychCNV
Description
Usage
Arguments
Details
Value
Author(s)
Source
Examples
Description
CheckAbnChr: Estimate abnormal chromosome.
Usage
1
2
CheckAbnChr(Path2RawFiles = "/media/NeoScreen/NeSc_home/ILMN/iPSYCH/Version2",
Cores = 1, Pattern = "*.txt$", skip = 10, NumFiles = "All")
Arguments
Path2RawFiles:
Path for the Log R Ratio (LRR) and B Allele Frequency (BAF) files. Example: "/media/NeoScreen/NeSc_home/ILMN/iPSYCH/Version2".
Cores:
Number of cores to run in parallel, default = 1.
Pattern:
Files pattern in the path. Example: "*.txt$".
Skip:
Integer, the number of lines of the data file to be skipped before beginning to read data. Use if file has comments, default = 10.
NumFiles:
Number of files to run. Example: numeric, 10 or character "All", default = All.
Details
Specifically designed to reduce false positive CNVs and handle data from amplified DNA on dried blood spots.
Value
Data frame with the estimate copy number for each chromosome.
Author(s)
Marcelo Bertalan, Louise K. Hoeffding.
Source
Examples
1
2
mockCNV <- MockData(N=5, Type="Blood", Cores=1)
cnvs <- CheckAbnChr(PathRawData=".", Cores=1, Pattern="^MockSample*", Skip=0)
mbertalan/iPsychCNV documentation built on May 22, 2019, 12:19 p.m.
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Description Usage Arguments Details Value Author(s) Source Examples
Description
CheckAbnChr: Estimate abnormal chromosome.
Usage
1 2 | CheckAbnChr(Path2RawFiles = "/media/NeoScreen/NeSc_home/ILMN/iPSYCH/Version2",
Cores = 1, Pattern = "*.txt$", skip = 10, NumFiles = "All")
|
Arguments
Path2RawFiles: |
Path for the Log R Ratio (LRR) and B Allele Frequency (BAF) files. Example: "/media/NeoScreen/NeSc_home/ILMN/iPSYCH/Version2". |
Cores: |
Number of cores to run in parallel, default = 1. |
Pattern: |
Files pattern in the path. Example: "*.txt$". |
Skip: |
Integer, the number of lines of the data file to be skipped before beginning to read data. Use if file has comments, default = 10. |
NumFiles: |
Number of files to run. Example: numeric, 10 or character "All", default = All. |
Details
Specifically designed to reduce false positive CNVs and handle data from amplified DNA on dried blood spots.
Value
Data frame with the estimate copy number for each chromosome.
Author(s)
Marcelo Bertalan, Louise K. Hoeffding.
Source
Examples
1 2 | mockCNV <- MockData(N=5, Type="Blood", Cores=1)
cnvs <- CheckAbnChr(PathRawData=".", Cores=1, Pattern="^MockSample*", Skip=0)
|
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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