| hg_gap {chromPlot} | R Documentation |
This track depicts gaps in the assembly of the human genome.
data(hg_gap)
A data frame with 457 observations on the following 4 variables.
Chroma character vector
Starta numeric vector
Enda numeric vector
Namea character vector
This track depicts gaps in the assembly of human genome. Gaps are represented as black boxes in this track. This assembly contains the following principal types of gaps: (In this context, a contig is a set of overlapping sequence reads.) Clone - gaps between clones (114 gaps). Contig - gaps between map contigs, various sizes (104 gaps). Telomere - 42 gaps for telomeres (100,000 Ns) Centromere - 20 gaps for centromeres (size: 2,890,000 Ns) Short_arm - 21 gaps for the short arm (10,000 Ns) at base positions 100, 001-110,000 of each chromosome. other - sequence of Ns in the assembly that were not marked as gaps in the AGP assembly definition file, various sizes (384 gaps). Fragment - a single gap of 31 bases in chrX_GL456233_random.
data.frame that contain the gaps in the assembly of the human genome.
data(hg_gap) ## maybe str(hg_gap) ; plot(hg_gap) ...