20.181:Assignments: Difference between revisions
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#[[Media:20181HW1.pdf | Assignment #1 PDF]] due before Sept. 14 (due on Wednesday before midnight) | #[[Media:20181HW1.pdf | Assignment #1 PDF]] due before Sept. 14 (due on Wednesday before midnight) | ||
#*[[Media:Hw1_sol.py | solution to fibonacci portion]] | #*[[Media:Hw1_sol.py | solution to fibonacci portion]] | ||
#*[[Media:Hw1_sol_UPGMA.pdf | solution to UPGMA portion]] | |||
#[[Media:20.181.hw2.pdf | Assignment #2 PDF]] due before Sept. 19 | #[[Media:20.181.hw2.pdf | Assignment #2 PDF]] due before Sept. 19 | ||
#*[[Media:hw2.txt | hw2.py: codebase for assignment #2]] (run with "python hw2.py") | #*[[Media:hw2.txt | hw2.py: codebase for assignment #2]] (run with "python hw2.py") | ||
#*[[Media:tree.txt | Example tree]] | #*[[Media:tree.txt | Example tree]] | ||
#*[[Media:Hw2_sol.py | a solution]] | |||
#[[Media:20.181.hw3.pdf | Assignment #3 PDF]] due before Sept. 21, | #[[Media:20.181.hw3.pdf | Assignment #3 PDF]] due before Sept. 21, | ||
#*[[Media:Hw3.py | Hw3.py: codebase for assignment #3]] run with "python hw3.py", | #*[[Media:Hw3.py | Hw3.py: codebase for assignment #3]] run with "python hw3.py", | ||
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#*[[Media:Tree3.pdf | pdf of example tree ]] | #*[[Media:Tree3.pdf | pdf of example tree ]] | ||
#* [[20:181:Materials:HW3_helper | smaller test tree (with answers)]] | #* [[20:181:Materials:HW3_helper | smaller test tree (with answers)]] | ||
#*[[Media:Hw3_sol.py | a solution]] | |||
#[[Media:20.181.hw4.pdf | Assignment #4 PDF]] due before Sept. 28 | #[[Media:20.181.hw4.pdf | Assignment #4 PDF]] due before Sept. 28 | ||
#*[[Media:hw4.py | hw4.py codebase for hw4]] | #*[[Media:hw4.py | hw4.py codebase for hw4]] | ||
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#*[[Media:seqs.aln | Example sequence alignment]] | #*[[Media:seqs.aln | Example sequence alignment]] | ||
#* [http://en.wikibooks.org/wiki/Python_Programming/Sets Using sets in Python] | #* [http://en.wikibooks.org/wiki/Python_Programming/Sets Using sets in Python] | ||
#*[[Media:Hw4_sol.py | a solution]] | |||
#[[Media:20.181.hw5.pdf | Assignment #5 PDF]] due before Oct. 10 | #[[Media:20.181.hw5.pdf | Assignment #5 PDF]] due before Oct. 10 | ||
#*[[Media:hw5.py | hw5.py codebase for hw5]] | #*[[Media:hw5.py | hw5.py codebase for hw5]] '''updated!''' -[[User:SoniaT|Sonia]] 19:58, 5 October 2006 (EDT) | ||
#*[[Media:tree5.txt | Example tree]] | #*[[Media:tree5.txt | Example tree]] | ||
#*[[Media:seqs5.aln | Example sequence alignment]] | #*[[Media:seqs5.aln | Example sequence alignment]] | ||
#*[ | #*[[20.181:sadEvoModel| jukes-cantor placeholding code]] | ||
#*[[Media:Hw5_sol.py | a solution]] | |||
#*[[Media:Hw_derivation.pdf | a derivation]] | |||
==Molecular Modeling== | ==Molecular Modeling== | ||
== | #[[Media:20.181.hw6.pdf | Assignment #6 PDF]] due before Oct. 17 | ||
#*[[Media:Data6.txt | Example data]] | |||
#*[[Media:HW6syntaxHelper.pdf | HW6 Syntax Helper]] | |||
#[[Media:20.181.hw7.pdf | Assignment #7 PDF]] due before Oct. 27 | |||
#*[[Media:Data7.txt | Example data]] | |||
#*[[Media:Vector.txt | Python module for vector math]] | |||
#*[[Media:Hw7_solutions.txt | the answers!]] | |||
#[[Media:20.181.hw8.pdf | Assignment #8 PDF]] due before Nov. 7 | |||
#*[[Media:hw8_Updated.zip | Code and data for hw8]] | |||
#[[Media:20.181.hw9.pdf | Assignment #9 PDF]] due before Nov. 15 | |||
#*[[Media:Hw9_updated.zip | Code and data for hw9]] | |||
#*[[Media:Athena_help.txt|help with getting the codebase onto your athena account]] | |||
==Discrete Reaction Events== | |||
#[[Media:HW10.pdf | Assignment #10 PDF]] due by midnight on December 4th | |||
#*[[Media:Hw10.zip]] | |||
#*[[Media:Athena_help2.txt| Help with getting the codebase onto your athena account]] | |||
#*[[Hw10_solutions]] | |||
#[[Media:Hw11.pdf | Assignment #11 PDF]] '''*OPTIONAL*''', turn in by Monday 5pm if you want feedback. | |||
#*[[Media:Hw11.zip]] '''updated''' [[User:SoniaT|Sonia]] 12:22, 8 December 2006 (EST) | |||
#*[[Hw11 hints]] | |||
#*[http://openwetware.org/wiki/20.181:hw11_sols hw 11 sols] | |||
Latest revision as of 16:45, 11 December 2006
Phylogenetic Inference
- Assignment #1 PDF due before Sept. 14 (due on Wednesday before midnight)
- Assignment #2 PDF due before Sept. 19
- hw2.py: codebase for assignment #2 (run with "python hw2.py")
- Example tree
- a solution
- Assignment #3 PDF due before Sept. 21,
- Hw3.py: codebase for assignment #3 run with "python hw3.py",
- Example tree in Newick form
- pdf of example tree
- smaller test tree (with answers)
- a solution
- Assignment #4 PDF due before Sept. 28
- Assignment #5 PDF due before Oct. 10
- hw5.py codebase for hw5 updated! -Sonia 19:58, 5 October 2006 (EDT)
- Example tree
- Example sequence alignment
- jukes-cantor placeholding code
- a solution
- a derivation
Molecular Modeling
- Assignment #6 PDF due before Oct. 17
- Assignment #7 PDF due before Oct. 27
- Assignment #8 PDF due before Nov. 7
- Assignment #9 PDF due before Nov. 15
Discrete Reaction Events
- Assignment #10 PDF due by midnight on December 4th
- Assignment #11 PDF *OPTIONAL*, turn in by Monday 5pm if you want feedback.
- Media:Hw11.zip updated Sonia 12:22, 8 December 2006 (EST)
- Hw11 hints
- hw 11 sols
