YAK_markers: Focal genome map (i.e., 'focalgenome') of _Drosophila yakuba_
In dorolin/rearrvisr: Detect, Classify, and Visualize Genome Rearrangements

Description Usage Format References See Also

A data set representing the D. yakuba genome with 16,039 markers on 605 genome segments (i.e., chromosomes and scaffolds). The genome map was generated based on publicly available genome assemblies downloaded from Ensemble Release 91 (http://dec2017.archive.ensembl.org) and Ensemble Metazoa Release 37 (http://oct2017-metazoa.ensembl.org). Orthologs were identified with OMA standalone v2.2.0 (Altenhoff et al. 2015). See the package vignette for details.

1	YAK_markers

A data frame with markers in rows and six columns that specify the structure of the D. melanogaster focal genome map:

`$marker`	unique ortholog ID of marker
`$scaff`	genome segment where marker is located
`$start`	start position of marker on genome segment
`$end`	end position of marker on genome segment
`$strand`	reading direction of marker
`$name`	marker name

Altenhoff, A.M. et al. (2015). The OMA orthology database in 2015: function predictions, better plant support, synteny view and other improvements. Nucleic Acids Research, 43, D240–D249. doi: 10.1093/nar/gku1158.

computeRearrs, MEL_markers, SIM_markers, MSSYE_PQTREE_HEUR

dorolin/rearrvisr documentation built on Aug. 6, 2020, 1:32 a.m.