pairs_in_patients_hist: Pairs in how many patients histogram

In GeneAccord: Detection of clonally exclusive gene or pathway pairs in a cohort of cancer patients

Description

Check in how many patients pairs are mutated in

Usage

pairs_in_patients_hist(clone_tbl)

Arguments

clone_tbl

The tibble containing the information of which gene/pathway is mutated in which clone from which patient and in which tree from the collection of trees. Can be generated with create_tbl_tree_collection for each patient separately and then appended.

Details

After having created the tibble with all gene-to-clone assignments from all patients and the whole collection of trees, we're interested in how many patients tha pairs are mutated in. This function creats a histogram that shows in how many patients the pairs are mutated in.

Value

The tibble that summarizes the number of pairs that occur in how many patients.

Author(s)

Ariane L. Moore

Examples

clone_tbl <- dplyr::tibble("file_name" =
    rep(c(rep(c("fn1", "fn2"), each=3)), 2),
    "patient_id"=rep(c(rep(c("pat1", "pat2"), each=3)), 2),
    "altered_entity"=c(rep(c("geneA", "geneB", "geneC"), 4)),
    "clone1"=c(0, 1, 0, 1, 0, 1, 0, 1, 1, 1, 0, 0),
    "clone2"=c(1, 0, 1, 0, 1, 1, 1, 0, 0, 1, 0, 1),
    "tree_id"=c(rep(5, 6), rep(10, 6)))
pairs_in_patients_hist(clone_tbl)

GeneAccord documentation built on Nov. 8, 2020, 8:04 p.m.