20.181:Assignments

Phylogenetic Inference

 * 1) [[Media:20181HW1.pdf | Assignment #1 PDF]] due before Sept. 14 (due on Wednesday before midnight)
 * 2) *[[Media:Hw1_sol.py | solution to fibonacci portion]]
 * 3) *[[Media:Hw1_sol_UPGMA.pdf | solution to UPGMA portion]]
 * 4) [[Media:20.181.hw2.pdf | Assignment #2 PDF]] due before Sept. 19
 * 5) *[[Media:hw2.txt | hw2.py: codebase for assignment #2]] (run with "python hw2.py")
 * 6) *[[Media:tree.txt | Example tree]]
 * 7) *[[Media:Hw2_sol.py | a solution]]
 * 8) [[Media:20.181.hw3.pdf | Assignment #3 PDF]] due before Sept. 21,
 * 9) *[[Media:Hw3.py | Hw3.py: codebase for assignment #3]] run with "python hw3.py",
 * 10) *[[Media:tree3.txt | Example tree]] in Newick form
 * 11) *[[Media:Tree3.pdf | pdf of example tree ]]
 * 12) * smaller test tree (with answers)
 * 13) *[[Media:Hw3_sol.py | a solution]]
 * 14) [[Media:20.181.hw4.pdf | Assignment #4 PDF]] due before Sept. 28
 * 15) *[[Media:hw4.py | hw4.py codebase for hw4]]
 * 16) *[[Media:tree4.txt | Example tree]]
 * 17) *[[Media:seqs.aln | Example sequence alignment]]
 * 18) * Using sets in Python
 * 19) *[[Media:Hw4_sol.py | a solution]]
 * 20) [[Media:20.181.hw5.pdf | Assignment #5 PDF]] due before Oct. 10
 * 21) *[[Media:hw5.py | hw5.py codebase for hw5]] updated! -Sonia 19:58, 5 October 2006 (EDT)
 * 22) *[[Media:tree5.txt | Example tree]]
 * 23) *[[Media:seqs5.aln | Example sequence alignment]]
 * 24) * jukes-cantor placeholding code
 * 25) *[[Media:Hw5_sol.py | a solution]]
 * 26) *[[Media:Hw_derivation.pdf | a derivation]]

Molecular Modeling

 * 1) [[Media:20.181.hw6.pdf | Assignment #6 PDF]] due before Oct. 17
 * 2) *[[Media:Data6.txt | Example data]]
 * 3) *[[Media:HW6syntaxHelper.pdf | HW6 Syntax Helper]]
 * 4) [[Media:20.181.hw7.pdf | Assignment #7 PDF]] due before Oct. 27
 * 5) *[[Media:Data7.txt | Example data]]
 * 6) *[[Media:Vector.txt | Python module for vector math]]
 * 7) *[[Media:Hw7_solutions.txt | the answers!]]
 * 8) [[Media:20.181.hw8.pdf | Assignment #8 PDF]] due before Nov. 7
 * 9) *[[Media:hw8_Updated.zip | Code and data for hw8]]
 * 10) [[Media:20.181.hw9.pdf | Assignment #9 PDF]] due before Nov. 15
 * 11) *[[Media:Hw9_updated.zip | Code and data for hw9]]
 * 12) *[[Media:Athena_help.txt|help with getting the codebase onto your athena account]]

Discrete Reaction Events

 * 1) [[Media:HW10.pdf | Assignment #10 PDF]] due by midnight on December 4th
 * 2) *[[Media:Hw10.zip]]
 * 3) *[[Media:Athena_help2.txt| Help with getting the codebase onto your athena account]]
 * 4) *Hw10_solutions


 * 1) [[Media:Hw11.pdf | Assignment #11 PDF]]  *OPTIONAL*, turn in by Monday 5pm if you want feedback.
 * 2) *[[Media:Hw11.zip]] updated Sonia 12:22, 8 December 2006 (EST)
 * 3) *Hw11 hints
 * 4) *hw 11 sols