MCF7_subpop1: SingneCell RT Test object

In CL-CHEN-Lab/User_interface_for_Kronos_scRT: R-package and Shiny App interface for the analysis of single cell replication timing data

SingneCell RT Test object

Description

A list with two tibble: PerCell and CNV for MCF7-subpop1 cells. Assembly Hg38.

Usage

MCF7_subpop1

Format

A list containing two tibbles variables:

• PerCellPer Cell metrics: a tibble containing 1192 rows and 6 columns

  • CellSingle Cell identifier

  • normalized_dimapdnormalized Depth Independent Median Absolute deviation of Pairwise Differences

  • mean_ploidySingle Cell mean ploidy

  • ploidy_confidenceConfidence in the CN calling

  • is_high_dimapdHigh DIMAPD cells have high internal variability and could be S-phase cells

  • is_noisynoisy cells have either poor ploidy confidence or high DIMAPD

  • coverage_per_1MbpReads coverage per megabase

  • basenameSample identifier

  • groupExperimental group identifier

• CNVSingle cell copy number 1366469 rows and 8 columns

  • CellSingle Cell identifier

  • chrChromosome position of a bin

  • startStart position of a bin

  • endEnd position of a bin

  • copy_numberCopy number Called for a bin

  • readsNormalised read count inside a bin

  • basenameSample identifier

  • groupExperimental group identifier

Source

https://www.nature.com/articles/s41467-022-30043-x

CL-CHEN-Lab/User_interface_for_Kronos_scRT documentation built on Aug. 1, 2022, 2:08 p.m.