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Experiments with Python and Genomics
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.gitignore
ABO.py
EM.py
EMBOSSwater.py
Experiments.py
LewisHW3Distances.py
LocalAlignment.py
MCMC.py
MH.py
MHclass.py
PyDotTrial.py
README.md
SavedLongestSubstring.py
SavedSuffixTree.py
SemiGlobalAlignment.py
SmithWaterman.py
SmithWaterman2.py
afrq.py
bio.py
blosum62.py
catalan2.py
chbp-2.py
chbp.py
conv.py
corrections.py
count.py
cset.py
cstr.py
dbru.py
dmatrix.py
ebin.py
edit2.py
elegant_laff.py
eubt.py
exp.py
expected.py
fasta.py
find.py
foun.py
full.py
global.py
global_alignment.py
indc.py
itwv.py
jtsuffix.py
kmer.py
kmp.py
kmp2.py
laff.py
lcs.py
lexi.py
ling.py
local_align.py
longest_common_binary.py
longestsubstring.py
lrep.py
markov.py
mend.py
mendel.py
mgap.py
motif.py
mrep.py
my_iterators.py
newfasta.py
nwck.py
nwck_class-2.py
nwck_class.py
nwck_class_2.py
nwck_class_3.py
nwck_class_4.py
nwck_class_5.py
nwck_class_rooted.py
nwck_save.py
nwck_save2.py
nwck_save3.py
orf.py
overlap.py
pairings.py
parsimony.py
parsimony_class.py
pcov.py
pdpl.py
perm.py
point.py
profile.py
protein_mass.py
protein_rna_count.py
prsm.py
python_align.py
qrt.py
qrtd-2.py
qrtd-3.py
qrtd.py
random_string.py
restriction.py
reversal_trivial.py
reversals (jeremy-macbook's conflicted copy 2014-06-17).py
reversals-sort.py
reversals.py
reversals2.py
rna.py
sankoff.py
scores.py
scs.py
semiglobal.py
set-ops.py
setup_align.py
setup_local_align.py
setup_traverse.py
sexl.py
sfx.py
sgra.py
signed_perm.py
spec.py
splicing.py
sptd.py
sptyd.py
stree.py
subsequence.py
substring.py
suff.py
suffix.py
superstring.py
test.py
tmp.py
tpose.py
tree2.py
tree_compare.py
tree_square.py
trie.py
wfmd.py

README.md

Genomics

Experiments with Python and Genomics

These are files related to experiments with Python and Bioinformatics, especially Rosalind. It is also a place to try working with Git.

The file names are sometimes opaque. One way to figure out what the programs do is to look at the "open" command, which should have the form: open("rosalind_xxxx","rU") Then the xxxx is a key to which Rosalind problem is solved.

Obviously I should have named the programs more systematically. Live and learn.

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