Difference between revisions of "KSherbina Week 3"
From LMU BioDB 2013
(Recorded the piped text used to find the complement of a strand.) |
(Entered the commands to find the amino acid sequence encoded by the +1 and +2 reading frames.) |
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| Line 7: | Line 7: | ||
To find the complementary strand of the sequence in the file ''prokaryote.txt'', the following sequence of piped text was executed | To find the complementary strand of the sequence in the file ''prokaryote.txt'', the following sequence of piped text was executed | ||
cat prokaryote.txt | sed "y/atcg/tagc/" | cat prokaryote.txt | sed "y/atcg/tagc/" | ||
| + | |||
| + | ===Reading Frames=== | ||
| + | |||
| + | The following piped sequence of text was invoked to determine the sequence of amino acids encoded by | ||
| + | *the +1 reading frame: | ||
| + | cat prokaryote.txt | sed "s/.../& /g" | sed "s/t/u/g" | sed -f genetic-code.sed | ||
| + | |||
| + | *the +2 reading frame: | ||
| + | cat prokaryote.txt | sed "s/^.//g" | sed "s/.../& /g" | sed "s/t/u/g" | sed -f genetic-code.sed | ||
| + | |||
Revision as of 00:43, 13 September 2013
| Assignment Description | Week 1 | Week 2 | Week 3 | Week 4 | Week 5 | Week 6 | Week 7 | Week 8 | Week 9 | Week 10 | Week 11 | Week 12 | Week 13 | Week 15 |
| Class Journal | Week 1 | Week 2 | Week 3 | Week 4 | Week 5 | Week 6 | Week 7 | Week 8 | Week 9 | |||||
| Individual Journal | Week 2 | Week 3 | Week 4 | Week 5 | Week 6 | Week 7 | Week 8 | Week 9 | Week 10 | Week 11 |
| Other | Week 5: Database Wiki |
| Final Project | Team H(oo)KD Project Page | Journal Club Presentation | Project Individual Journal |
The Genetic Code, by Computer
Complement of a Strand
To find the complementary strand of the sequence in the file prokaryote.txt, the following sequence of piped text was executed
cat prokaryote.txt | sed "y/atcg/tagc/"
Reading Frames
The following piped sequence of text was invoked to determine the sequence of amino acids encoded by
- the +1 reading frame:
cat prokaryote.txt | sed "s/.../& /g" | sed "s/t/u/g" | sed -f genetic-code.sed
- the +2 reading frame:
cat prokaryote.txt | sed "s/^.//g" | sed "s/.../& /g" | sed "s/t/u/g" | sed -f genetic-code.sed
