#MatLab Scripts were written to parse SeRP data derived from an analysis pipeline described in Galmozzi et al. Nat. Methods (2019)

#MatLab scripts were written for MatLab version: v9.7.0.1296695 (R2019b) Update 4
#To get started, one should use the help function.

#To obtain the lists required for Matlab, use:

module load binutils/2.28-GCCcore-6.4.0
module load foss/2019b
module load matplotlib/3.1.1-foss-2019b-Python-3.7.4

python3 /…/gfkramer-SeRP_yeast-d91cdff/Supplementary_script_A.py -i /…/script_A/ -x yes accepted_hits.sam Target_Condition_No 10

#serp_read: Simple string read function to parse txt files from Galmozzi et al. scripts.
#serp_analyzer: Plot, analyze and replicate combine function for data provided by function serp_read.
#serp_ORF: Depicts single and defined ORFs of interest from the translatome-wide data.
#Nup_pos: example sheet of ORF definitions.