chain.info | chain.info |
chain.info.epiG | chain.info |
compute_chunk_positions | Compute chunk positions |
coverage | coverage |
coverage.epiG | coverage |
create_bisulfite_model | create_bisulfite_model |
create_error_distributions | create_error_distributions |
create_genotype_prior_alt | create_genotype_prior_alt |
create_genotype_prior_ref | create_genotype_prior |
end | end position |
end.epiG | end |
epiG | Fit an epiG model |
epiG.algorithm.config | Create a epiG configuration |
epiG.chunks | epiG.chunks |
exp_decay | exp_decay |
fetch_alt | fetch_alt |
fetch.reads | fetch_reads |
fetch_reads_info | fetch_reads_info |
fetch_ref | fetch_ref |
genotype | genotype |
genotype.epiG | genotype codeing C = 1, G = 2, A = 3, T = 4 |
length.epiG | Length of model in base pairs |
locate.DGCH | locate DGCH positions |
locate.GCH | locate GCH positions |
locate.HCGD | locate HCGD positions |
locate.SNP | locate SNP positions |
methylation | methylation |
methylation.epiG | methylation |
nchain | Number of chains |
nchain.epiG | Number of chains |
nchunks | Number of chunks |
nchunks.epiG | Number of chunks |
nread | Number of reads in model |
nread.epiG | Number of reads in model |
position.info | position.info |
position.info.epiG | position.info |
print.epiG | |
print.epiG.config | print config |
read.fasta | Read fasta |
read.info | read.info |
read.info.epiG | read.info |
start | start position |
start.epiG | start |
strand | strand |
strand.epiG | strand |
subregion | subregion |
subregion.epiG | subregion |
symbols | symbols |
vector.search | vector search |
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