Man pages for VilainLab/Nanotator
Next generation structural variant annotation and classification

buildrunBNBedFilesReads BED files to produce bionano Bed files
clinvar_geneExtracting genes from clinvar database NCBI.
cohortFrequencyCalculates the internal frequencies of SV in bionano cohorts
compSmapbedExtracts gene information from bed files
Decipher_extractionFrequency calculation of variants compared to DGV.
DGV_extractionFrequency calculation of variants compared to DGV.
gene_extractionExtracting genes from gene database NCBI.
gene_list_generationExtracting genes for phenotype/diseases from NCBI.
gtr_geneExtracting genes from gtr database NCBI.
internalFrequencyCalculates the internal frequencies of SV in internal cohorts
makeMergedSmapDataMerges Bionano SV files to one common SV file
makeMergedSVDataMerges Solo SV files to one common SV file
nanotatoRnanotatoR: Annotation package for Bionano Data
nanotatoR_mainAnnotation of Bionano SV.
nonOverlapGenesCalculates Genes that are near to the SV region
omim_geneExtracting genes from OMIM database NCBI.
overlapGenesCalculates Genes that overlap the SV region
readBNBedFilesReads Bionano Bedfiles
readSMapReads SMAP files to extract information
run_bionano_filterGetting the data from annotated smaps to extract SV...
VilainLab/Nanotator documentation built on May 20, 2019, 5:41 p.m.