AsmaSwapna / genometasks

Genometasks

Given two types of text files of genomic information, using the SEGMENT format and the FUNCTION format carry out the given 3 tasks.

Task Execution

Initial environement setup using the Makefile make

Task 1 - 2 SEGMENT files

Overview:

Calculate the overlap (in number of positions) of the regions from file X.s with regions from file Y.s.

Command to execute the task- python overlapcount.py *.s

Task 2 - 2 FUNCTION files:

Overview:

Calculate the sample Pearson correlation coefficient of the two number lists:

Command to execute the task- python pearsonvalue.py *.f

Task 3 - 1 SEGMENT and one FUNCTION file: :

Overview:

Calculate the mean of the numbers in the FUNCTION file whose positions are covered by the regions in the SEGMENT file. That is, the regions in the SEGMENT file refer to positions on the genome and hence to the index of the lines in the FUNCTION file.

INCOMPLETE