Initial commit

f769587a · LeliaP · f769587a · f769587a · f769587a · f769587a
Commit f769587a authored Nov 18, 2021 by LeliaP
14 changed files
--- a/.DS_Store
+++ b/.DS_Store
--- a/BilanTD1TD2_AAGB_29.10.21.pdf
+++ b/BilanTD1TD2_AAGB_29.10.21.pdf
--- a/Semaine1/AAGBTD1_2020.pdf
+++ b/Semaine1/AAGBTD1_2020.pdf
--- a/Semaine1/AAGBTME1_2020.pdf
+++ b/Semaine1/AAGBTME1_2020.pdf
--- a/Semaine1/BLOSUM62.txt
+++ b/Semaine1/BLOSUM62.txt
+#  Matrix made by matblas from blosum62.iij
+#  * column uses minimum score
+#  BLOSUM Clustered Scoring Matrix in 1/2 Bit Units
+#  Blocks Database = /data/blocks_5.0/blocks.dat
+#  Cluster Percentage: >= 62
+#  Entropy =   0.6979, Expected =  -0.5209
+   A  R  N  D  C  Q  E  G  H  I  L  K  M  F  P  S  T  W  Y  V  B  Z  X  *
+A  4 -1 -2 -2  0 -1 -1  0 -2 -1 -1 -1 -1 -2 -1  1  0 -3 -2  0 -2 -1  0 -4 
+R -1  5  0 -2 -3  1  0 -2  0 -3 -2  2 -1 -3 -2 -1 -1 -3 -2 -3 -1  0 -1 -4 
+N -2  0  6  1 -3  0  0  0  1 -3 -3  0 -2 -3 -2  1  0 -4 -2 -3  3  0 -1 -4 
+D -2 -2  1  6 -3  0  2 -1 -1 -3 -4 -1 -3 -3 -1  0 -1 -4 -3 -3  4  1 -1 -4 
+C  0 -3 -3 -3  9 -3 -4 -3 -3 -1 -1 -3 -1 -2 -3 -1 -1 -2 -2 -1 -3 -3 -2 -4 
+Q -1  1  0  0 -3  5  2 -2  0 -3 -2  1  0 -3 -1  0 -1 -2 -1 -2  0  3 -1 -4 
+E -1  0  0  2 -4  2  5 -2  0 -3 -3  1 -2 -3 -1  0 -1 -3 -2 -2  1  4 -1 -4 
+G  0 -2  0 -1 -3 -2 -2  6 -2 -4 -4 -2 -3 -3 -2  0 -2 -2 -3 -3 -1 -2 -1 -4 
+H -2  0  1 -1 -3  0  0 -2  8 -3 -3 -1 -2 -1 -2 -1 -2 -2  2 -3  0  0 -1 -4 
+I -1 -3 -3 -3 -1 -3 -3 -4 -3  4  2 -3  1  0 -3 -2 -1 -3 -1  3 -3 -3 -1 -4 
+L -1 -2 -3 -4 -1 -2 -3 -4 -3  2  4 -2  2  0 -3 -2 -1 -2 -1  1 -4 -3 -1 -4 
+K -1  2  0 -1 -3  1  1 -2 -1 -3 -2  5 -1 -3 -1  0 -1 -3 -2 -2  0  1 -1 -4 
+M -1 -1 -2 -3 -1  0 -2 -3 -2  1  2 -1  5  0 -2 -1 -1 -1 -1  1 -3 -1 -1 -4 
+F -2 -3 -3 -3 -2 -3 -3 -3 -1  0  0 -3  0  6 -4 -2 -2  1  3 -1 -3 -3 -1 -4 
+P -1 -2 -2 -1 -3 -1 -1 -2 -2 -3 -3 -1 -2 -4  7 -1 -1 -4 -3 -2 -2 -1 -2 -4 
+S  1 -1  1  0 -1  0  0  0 -1 -2 -2  0 -1 -2 -1  4  1 -3 -2 -2  0  0  0 -4 
+T  0 -1  0 -1 -1 -1 -1 -2 -2 -1 -1 -1 -1 -2 -1  1  5 -2 -2  0 -1 -1  0 -4 
+W -3 -3 -4 -4 -2 -2 -3 -2 -2 -3 -2 -3 -1  1 -4 -3 -2 11  2 -3 -4 -3 -2 -4 
+Y -2 -2 -2 -3 -2 -1 -2 -3  2 -1 -1 -2 -1  3 -3 -2 -2  2  7 -1 -3 -2 -1 -4 
+V  0 -3 -3 -3 -1 -2 -2 -3 -3  3  1 -2  1 -1 -2 -2  0 -3 -1  4 -3 -2 -1 -4 
+B -2 -1  3  4 -3  0  1 -1  0 -3 -4  0 -3 -3 -2  0 -1 -4 -3 -3  4  1 -1 -4 
+Z -1  0  0  1 -3  3  4 -2  0 -3 -3  1 -1 -3 -1  0 -1 -3 -2 -2  1  4 -1 -4 
+X  0 -1 -1 -1 -2 -1 -1 -1 -1 -1 -1 -1 -1 -1 -2  0  0 -2 -1 -1 -1 -1 -1 -4 
+* -4 -4 -4 -4 -4 -4 -4 -4 -4 -4 -4 -4 -4 -4 -4 -4 -4 -4 -4 -4 -4 -4 -4  1 
\ No newline at end of file
--- a/Semaine2/.DS_Store
+++ b/Semaine2/.DS_Store
--- a/Semaine2/.ipynb_checkpoints/Correction TME2 AAGB-checkpoint.ipynb
+++ b/Semaine2/.ipynb_checkpoints/Correction TME2 AAGB-checkpoint.ipynb
--- a/Semaine2/.ipynb_checkpoints/TME2_correction_28.10.21-checkpoint.ipynb
+++ b/Semaine2/.ipynb_checkpoints/TME2_correction_28.10.21-checkpoint.ipynb
--- a/Semaine2/AAGBTD2.pdf
+++ b/Semaine2/AAGBTD2.pdf
--- a/Semaine2/AAGBTME2.pdf
+++ b/Semaine2/AAGBTME2.pdf
--- a/Semaine2/distance_matrix.txt
+++ b/Semaine2/distance_matrix.txt
+M1 = [[0,8,7,12], [8,0,9,14], [7,9,0,11], [12,14,11,0]]
+M2 = [[0,2,3,8,14,18],[2,0,3,8,14,18],
+      [3,3,0,8,14,18],[8,8,8,0,14,18],
+      [14,14,14,14,0,18],[18,18,18,18,18,0]]
+#UPGMA
+M3 = [[0,19,27,8,33,18,13],[19,0,31,18,36,1,13],
+          [27,31,0,26,41,32,29],[8,18,26,0,31,17,14],
+          [33,36,41,31,0,35,28],[18,1,32,17,35,0,12],
+          [13,13,29,14,28,12,0]]
+#Neighbor Joining
+M4 = [[0,2,4,6,6,8],[2,0,4,6,6,8],
+          [4,4,0,6,6,8],[6,6,6,0,4,8],
+          [6,6,6,4,0,8],[8,8,8,8,8,0]]
--- a/Semaine3/AAGB_TD3.pdf
+++ b/Semaine3/AAGB_TD3.pdf
--- a/Semaine3/AAGB_TME3.pdf
+++ b/Semaine3/AAGB_TME3.pdf
--- a/Semaine3/matrice_cout.txt
+++ b/Semaine3/matrice_cout.txt
+StepMatrix = [[0, 3, 4, 9],
+        [3, 0, 2, 4],
+        [4, 2, 0, 4],
+        [9, 4, 4, 0]]
\ No newline at end of file