I have a list of lists that looks like:
[['chr1', '3088', '1', 744, 'L1MCc_dup1']
['chr1', '3089', '1', 744, 'L1MCc_dup1']
['chr1', '3090', '1', 744, 'L1MCc_dup1']
['chr1', '15037', '1', 96, 'MER63B']
['chr1', '15038', '1', 96, 'MER63B']
['chr1', '15039', '1', 96, 'MER63B']
['chr1', '15040', '1', 96, 'MER63B']
['chr1', '19465', '1', 418, 'MLT2B4_dup1']
['chr1', '19466', '1', 418, 'MLT2B4_dup1']
['chr1', '19467', '1', 418, 'MLT2B4_dup1']]
I need to make the equivalent of a sumifs function in python (as the file is too big for excel) to sum the contents of column 3 based on the identifier in column 5 (output can be some version of L1MCc_dup1 is 3, MER63B is 4 and MLT2B4_dup1 is 3).
Any advice/help to make this function?
Use a dictionary:
d = {}
for row in my_list:
key = row[4]
value = int(row[2])
d[key] = d.get(key, 0) + value
After this loop, d will map the key values in the last column to the desired sums.
You could also use collections.defaultdict instead of a normal dictionary.
>>> d =[['chr1', '3088', '1', 744, 'L1MCc_dup1'],
['chr1', '3089', '1', 744, 'L1MCc_dup1'],
['chr1', '3090', '1', 744, 'L1MCc_dup1'],
['chr1', '15037', '1', 96, 'MER63B'],
['chr1', '15038', '1', 96, 'MER63B'],
['chr1', '15039', '1', 96, 'MER63B'],
['chr1', '15040', '1', 96, 'MER63B'],
['chr1', '19465', '1', 418, 'MLT2B4_dup1'],
['chr1', '19466', '1', 418, 'MLT2B4_dup1'],
['chr1', '19467', '1', 418, 'MLT2B4_dup1']]
>>> sum(map(lambda x: x[3], filter(lambda x: x[4] == 'MLT2B4_dup1', d)))
1254
Sum of all column 4 values (I assume you meant that because it was the only int column), where the last column equals to 'MLT2B4_dup1'. You can change that to any other condition of course.
