Skip to content

Update 3rd-gc.py #6

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Open
NeilRickards wants to merge 1 commit into
base: master
Choose a base branch
from
Open

Update 3rd-gc.py #6

Changes from all commits
Commits
Show all changes
1 commit
Select commit
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
25 changes: 8 additions & 17 deletions 3rd-gc.py
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -2,40 +2,30 @@


def read_csv(filename):
records = []
with open(filename, 'rt') as fp:
reader = csv.reader(fp, delimiter=',')
for ii, row in enumerate(reader):
if ii > 0:
records.append(row)

return records
next(reader)
return list(reader)


codons = read_csv('codon-table-grouped.csv')
#print(codons)

c2s= {}
for c in codons:
c2s[c[1]] = c[0]
c2s= {amino: codon for codon, amino in codons}
print(c2s)


virvac = read_csv("side-by-side.csv")
#print(virvac)

matches = 0

for element in virvac:

vir = element[1]
vac = element[2]
for (_, vir, vac) in virvac:

print(f'{vir} v {vac}, amino: {c2s[vir]} == {c2s[vac]}.')

our = vir

if vir[2] == 'G' or vir[2] == 'C':
if vir[2] in ['G','C']:
print('codon ended on G or C already, not doing anything')

else:
Expand All @@ -46,7 +36,7 @@ def read_csv(filename):
print('amino acid still the same, done!')
our = prop
else:
print(f'Oops, maino acid changed. Trying C, new candidate {prop}')
print(f'Oops, amino acid changed. Trying C, new candidate {prop}')
prop = vir[:2] + "C"

if c2s[vir] == c2s[prop]:
Expand All @@ -55,7 +45,8 @@ def read_csv(filename):

if vac == our:
print('Matched the vaccine!')
matches +=1
matches += 1

else:
print('No Match.')

Expand Down