micah-olivas/array-print

Array printing python notebook for use with Scienion liquid-handling robot.

Array Print

Interactive python notebook used in generating print inputs for a Scienion liquid-handling robot.

Array Print takes a .csv containing a MITOMI-assayable library in a 384-well layout and returns a Scienion-compatible .fld file and a .csv record of the array layout. Array Print optimizes the number of biological replicates that appear in the experiment and their placement within the print array to control for cross-chamber contamination during MITOMI experiments. If prior information about the reactivity of library members exists, the user may bin members by acitivity level and Array Print will prioritize placing less reactive members upstream on the array to minimize contamination along the flowpath.

array-print's Issues

Member counts do not reflect replicates appearing in final print

replicate number is currently calculated from the complete array dimensions and does not take into account removed columns or skipped rows. member_count values are tabulated during the array function using the replicate value as an upper bound, before control columns are randomly removed. Thus, the resulting member_count values do not reflect the actual number of library members that appear in the chip.

Fix:

• before array position for loop, remove rows and columns from array

Outcome:

• member_count values reflect number of replicates appearing in resulting print