inst/extdata/ReadMe.md

In rqtl/qtl2: Quantitative Trait Locus Mapping in Experimental Crosses

Sample input data files (zipped) + small example variant and gene databases

Sample input files

• grav2.zip, data from Moore et al. (2013) Genetics 195:1077-1086 (the second replicate of the RILs)

• iron.zip, data from Grant et al. (2006) Hepatology 44:174-185

See the contents at https://kbroman.org/qtl2/pages/sampledata.html.

These can be read into R with qtl2::read_cross2().

Variant and gene databases

• cc_variants_small.sqlite - SQLite database of variants in the Collaborative Cross founders in two small regions

• mouse_genes_small.sqlite - SQLite database of mosue genes in two small regions

The larger versions of these database files are available for direct download from figshare:

• cc_variants.sqlite doi:10.6084/m9.figshare.5280229.v3
• mouse_genes.sqlite doi:10.6084/m9.figshare.5280238.v7

A smaller version of the mouse genes database, with just the records with source=="MGI", is also available at figshare:

• mouse_genes_mgi.sqlite doi:10.6084/m9.figshare.5286019.v8

rqtl/qtl2 documentation built on June 30, 2024, 7:33 a.m.