File contains sex chromosome dosage information. One row for each cell (all donors included); sorted by donor then by cell.
Columns:
donor: sperm donor
cell: cell barcode
X_AvgRD_whole: read depth (copy number) for the whole X chromosome - total number of observed reads on X divided by total number of expected reads on X
X_AvgRD_p: read depth (copy number) for the p arm of the X chromosome (as described with whole X chromosome)
X_AvgRD_q: read depth (copy number) for the q arm of the X chromosome (as described with whole X chromosome)
Y_AvgRD_whole: read depth (copy number) for the whole Y chromosome - equivalent to the q arm as Y is acrocentric (as described with whole X chromosome)
karyotype: Sex chromosome karyotype inferred from these read depths & statistical tests identifying aneuploidy.
tX_GAIN: result for t-test for this specific category (0 = not called, 1 = called). Would expect a 'loss' of one or the other sex chromosomes for a normal cell.
tX_gainP: result for t-test for this specific category (0 = not called, 1 = called). Would expect a 'loss' of one or the other sex chromosomes for a normal cell.
tX_gainQ: result for t-test for this specific category (0 = not called, 1 = called). Would expect a 'loss' of one or the other sex chromosomes for a normal cell.
tY_GAIN: result for t-test for this specific category (0 = not called, 1 = called). Would expect a 'loss' of one or the other sex chromosomes for a normal cell.
tX_LOSS: result for t-test for this specific category (0 = not called, 1 = called). Would expect a 'loss' of one or the other sex chromosomes for a normal cell.
tX_lossP: result for t-test for this specific category (0 = not called, 1 = called). Would expect a 'loss' of one or the other sex chromosomes for a normal cell.
tX_lossQ: result for t-test for this specific category (0 = not called, 1 = called). Would expect a 'loss' of one or the other sex chromosomes for a normal cell.
tY_LOSS: result for t-test for this specific category (0 = not called, 1 = called). Would expect a 'loss' of one or the other sex chromosomes for a normal cell.