summarise_PerWell: Summarise Per well

In lucyleeow/CellProfileR: Analyse Cell Morphology Data Generated By CellProfiler

Description

Calculate the sum (for 'Count' features) or median (for features starting with 'Median') value of the Cell Profiler columns (features) for each well. If only df_full is given, the sum and median of ALL images (rows) will be output. If df_filtered is also provided, the sum of ALL images (i.e. using df_full) will be output for 'Count' features but the median of only the images remaining after filtering (i.e. using df_filtered) will be output for features starting with 'Median'.

Usage

summarise_perWell(df_full, df_filtered, num_images)

Arguments

df_full	Dataframe of full raw (per image) Cell Profiler data, with no images (rows) removed.
df_filtered	Optional argument. Dataframe of filtered Cell Profiler data, with poor quality images (rows) removed. If given, this dataframe will be used to calculate the median value of features that start with 'Median'.
num_images	The number of images taken per well.

Value

A dataframe or data.table (if 'df_filtered' provided) with one value per well.

lucyleeow/CellProfileR documentation built on May 21, 2019, 2:30 a.m.