Mercurial > repos > devteam > substitution_rates
comparison substitution_rates.py @ 1:3d9544198582 draft default tip
planemo upload commit fa9a2569c9ece4b03f622d0b85b0e5376a25084c-dirty
| author | devteam |
|---|---|
| date | Tue, 29 Sep 2015 11:09:15 -0400 |
| parents | d1b35bcdaacc |
| children |
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| 0:d1b35bcdaacc | 1:3d9544198582 |
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| 3 """ | 3 """ |
| 4 Estimates substitution rates from pairwise alignments using JC69 model. | 4 Estimates substitution rates from pairwise alignments using JC69 model. |
| 5 """ | 5 """ |
| 6 | 6 |
| 7 from galaxy import eggs | 7 from galaxy import eggs |
| 8 from galaxy.tools.util.galaxyops import * | 8 from galaxy.tools.util.galaxyops import parse_cols_arg |
| 9 from galaxy.tools.util import maf_utilities | 9 from galaxy.tools.util import maf_utilities |
| 10 from bx.intervals.io import NiceReaderWrapper | |
| 10 import bx.align.maf | 11 import bx.align.maf |
| 11 import fileinput | 12 import fileinput |
| 12 import sys | 13 import sys |
| 13 | 14 |
| 14 def stop_err(msg): | 15 def stop_err(msg): |