The beamr function takes as input pairs of observed gene expression levels of a single gene in experiments under differing conditions, and outputs the BEAM estimates of the ratio of the transcript levels, the probability that a ratio at least that extreme would be observed if the underlying transcript levels were identical (p value) and the standard deviation of the ratio estimate, reported as a factor (i.e., if RATIO denotes the estimated ratio, and STD_FACTOR denotes the standard deviation factor, then the 1-sigma interval for the true ratio is [RATIO/STD_FACTOR RATIO*STD_FACTOR]).Enter one or more pairs of observed values from repeated experiments in the form, then hit SUBMIT to see the BEAM estimates, p values, and standard deviations. Alternately, you may provide the name of a file containing pairs of observed values; in this case, only the file will be used, and values entered directly into the form will be ignored. In either case, enter numeric values separated by whitespace. You may enter as many values per line as you like.

This implementation of BEAM handles observed values between -600 or greater and 15,000; inputs outside this range or nonnumeric inputs will result in estimates and standard deviations denoted by NaN.

There will be some delay while the estimates are calculated; BEAM needs to load several large lookup tables into memory.

rif@alum.mit.edu