append_data_frame: append_data_frame

In mcneilllucy/synapsis: An R package to automate the analysis of double-strand break repair during meiosis

Description

applies new row to data frame

Usage

append_data_frame(
  WT_str,
  KO_str,
  WT_out,
  KO_out,
  img_file,
  foci_areas,
  df_cells,
  cell_count,
  stage,
  foci_per_cell,
  image_mat,
  percent_px,
  alone_foci,
  discrepant_category,
  C1
)

Arguments

WT_str	string in filename corresponding to wildtype genotype. Defaults to ++.
KO_str	string in filename corresponding to knockout genotype. Defaults to –.
WT_out	string in output csv in genotype column, for knockout. Defaults to +/+.
KO_out	string in output csv in genotype column, for knockout. Defaults to -/-.
img_file	cell's file name
foci_areas	pixel area of each foci
df_cells	current data frame
cell_count	unique cell counter
stage,	meiosis stage of interest. Currently count_foci determines this with thresholding/ object properties in the synaptonemal complex channel by previosly calling the get_pachytene function. Note that if using this option, the count_foci function requires that the input directory contains a folder called “pachytene” with the crops in it.
foci_per_cell	foci count for cell
image_mat	matrix with all pixel values above zero
percent_px	percentage of foci mask that coincides with strand channel small number indicates potentially problematic image.
alone_foci	estimated number of foci that are NOT on a strand.
discrepant_category	estimated number of foci that are NOT on a strand.
C1	criteria

Value

data frame with new row

mcneilllucy/synapsis documentation built on Dec. 21, 2021, 3:59 p.m.