Annotate | Annotation of segmented regions and generation of an HTML QC... |
Annotate.ff | Annotation of segmented regions and generation of an HTML QC... |
Annotate.ff.Batch | Runs Annotate.ff in batch mode with multithreading |
ASCN.ASCAT | Allele-Specific Copy Number estimation using ASCAT |
ASCN.FACETS | Allele-Specific Copy Number estimation using FACETS |
ASCN.ff | Allele-Specific Copy Number estimation, from a RDS file. |
ASCN.ff.Batch | Allele-Specific Copy Number estimation, from RDS files in... |
ASCN.SEQUENZA | Allele-Specific Copy Number estimation using SEQUENZA |
BedCheck | Performs checks un cleanups on a WES capture bed file |
BedGC.chr | Compute GC-content of genomic regions defined by a BED file... |
BedGC.fasta | Compute GC-content of genomic regions defined by a BED file... |
BINpack.Maker | Generates a "BINpack" containing binned data and GC tracks... |
CS.Process | Normalize CytoScanHD_Array arrays using Affymetrix Power... |
CS.Process.Batch | Run CS.Process() in batch mode with multithreading |
EaCoN.set.bitmapType | Changes the environment variable bitmapType |
GC.data | Dataset containing GC-content data |
gen.df | Human gene symbols and chromosomal positions (refGene) |
OS.Process | Normalize OncoScan / OncoScan_CNV arrays using Affymetrix... |
OS.Process.Batch | Runs OS.Process in batch mode with multithreading |
Segment.ASCAT | L2R and BAF joint segmentation using ASCAT. |
Segment.FACETS | L2R and BAF joint segmentation using FACETS. |
Segment.ff | L2R and BAF joint segmentation, from a RDS file. |
Segment.ff.Batch | L2R and BAF joint segmentation, from a RDS file in batch... |
Segment.SEQUENZA | L2R and BAF joint segmentation using SEQUENZA. |
SNP6.Process | Normalize GenomeWideSNP_6 arrays using Affymetrix Power Tools... |
SNP6.Process.Batch | Run SNP6.Process() in batch mode with multithreading |
targetlist | A restricted list of human gene symbols |
WES.Bin | Computes the read depth of a pair of BAM files and bins it. |
WES.Bin.Batch | Run WES.Bin() in batch mode with multithreading |
WES.Normalize | Normalization of binned WES data. |
WES.Normalize.ff | Normalization of binned WES data from a RDS file. |
WES.Normalize.ff.Batch | Normalization of binned WES data from a RDS file in batch... |
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