bambaf_from_vcf         Get BAM baf information from vcf
bed_generator           Generate BED file for WGS dataset.
chr                     chromosome of the example
filenm                  Name of the file
get_array_input         Get array information from given format
iCNV_detection          CNV detection
icnv_output_to_gb       Convert icnv.output to input for Genome
                        Browser.
icnv_res0               Example iCNV calling results.
ngs_baf                 BAF list from NGS
ngs_baf.chr             BAF chromosome from NGS
ngs_baf.id              BAF variants id from NGS
ngs_baf.nm              BAF variants sample name from NGS
ngs_baf.pos             BAF position list from NGS
ngs_plr                 Normalized Poisson likelihood ratio list from
                        NGS
ngs_plr.pos             Exon location list from NGS
normObj                 Demo data pre-stored for normObj.
output_list             Generate ouput list.
plotHMMscore            Plot CNV inference score.
plot_intensity          plot out the NGS plr or array lrr.
plotindi                Individual sample plot
projname                name of project
qcObj                   Demo data pre-stored for qcObj.
sampname                CODEX sample name
sampname_qc             QCed sample name
snp_baf                 BAF list from Array
snp_baf.pos             BAF position list from Array
snp_lrr                 Normalized log R ratio list from Array
snp_lrr.pos             SNP position list from Array
