Reference

All functions

calculate_deltacq_bysampleid()

Calculate delta cq (\(\Delta Cq\)) to normalize quantification cycle (log2-fold) data within sample_id.

calculate_deltadeltacq_bytargetid()

Calculate delta delta cq (\(\Delta \Delta Cq\)) to globally normalize quantification cycle (log2-fold) data across sample_id.

calculate_drdt_plate() getdRdTall()

Calculate dR/dT of melt curves for of every well in a plate.

calculate_dydx_1()

Calculate dy/dx vector from vectors y and x

calculate_efficiency()

Calibrate primer sets / probes by calculating detection efficiency and R squared

calculate_efficiency_bytargetid()

Calibrate multiple probes by calculating detection efficiency and R squared

calculate_normvalue()

Calculate a normalized value for a subset of reference ids

create_blank_plate() create_blank_plate_96well() make_row_names_lc1536() make_row_names_echo1536() create_blank_plate_1536well()

Create a blank plate template as a tibble

create_colkey_4diln_2ctrl_in_24()

Create a 4-dilution column key for primer calibration

create_colkey_6_in_24()

Create a 6-value, 24-column key for plates

create_colkey_6diln_2ctrl_in_24()

Create a 6-dilution column key for primer calibration

create_rowkey_4_in_16()

Create a 4-value, 16-row key for plates

create_rowkey_8_in_16_plain()

Create a plain 8-value, 16-row key for plates

debaseline()

Remove baseline from amplification curves (BETA)

display_plate()

Display plate plan with sample_id, target_id, prep_type per well

label_plate_rowcol()

Label a plate with sample and probe information

scale_x_log2nice() scale_x_log10nice() scale_y_log2nice() scale_y_log10nice() scale_loglog10()

Nice tick labels for logarithmic axes in ggplot2.

read_lightcycler_1colour_cq()

Reads quantification cycle (cq) data in 1 colour from Roche Lightcyclers

read_lightcycler_1colour_raw()

Reads raw text-format fluorescence data in 1 colour from Roche Lightcyclers