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Revision 1.12 - (view) (download) (as text) (annotate) - [select for diffs]
Fri Aug 27 20:07:32 2010 UTC (9 years, 3 months ago) by olson
Branch: MAIN
CVS Tags: mgrast_dev_02212011, mgrast_dev_02222011, mgrast_dev_03252011, mgrast_dev_03312011, mgrast_dev_04012011, mgrast_dev_04052011, mgrast_dev_04082011, mgrast_dev_04132011, mgrast_dev_05262011, mgrast_dev_06072011, mgrast_dev_08022011, mgrast_dev_08112011, mgrast_dev_10262011, mgrast_dev_12152011, mgrast_release_3_0, mgrast_release_3_0_1, mgrast_release_3_0_2, mgrast_release_3_0_3, mgrast_release_3_0_4, mgrast_release_3_1_0, mgrast_release_3_1_1, mgrast_release_3_1_2, mgrast_version_3_2, myrast_33, myrast_rel40, rast_rel_2010_0928, rast_rel_2010_1206, rast_rel_2011_0119, rast_rel_2011_0928
Changes since 1.11: +2 -1 lines
Diff to previous 1.11
typod the declaration

Revision 1.11 - (view) (download) (as text) (annotate) - [select for diffs]
Fri Aug 27 19:32:22 2010 UTC (9 years, 3 months ago) by olson
Branch: MAIN
Changes since 1.10: +4 -0 lines
Diff to previous 1.10
add SAS header

Revision 1.10 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Oct 27 00:34:37 2008 UTC (11 years, 1 month ago) by overbeek
Branch: MAIN
CVS Tags: mgrast_rel_2008_1110, mgrast_rel_2008_1110_v2, rast_rel_2008_11_24, rast_rel_2008_12_18, rast_rel_2009_02_05, rast_rel_2009_03_26, rast_rel_2009_05_18, rast_rel_2009_07_09, rast_rel_2009_0925, rast_rel_2010_0118, rast_rel_2010_0526, rast_rel_2010_0827
Changes since 1.9: +143 -0 lines
Diff to previous 1.9
add the ability to find TIF3

Revision 1.9 - (view) (download) (as text) (annotate) - [select for diffs]
Wed Feb 13 07:17:15 2008 UTC (11 years, 10 months ago) by gdpusch
Branch: MAIN
CVS Tags: mgrast_rel_2008_0625, mgrast_rel_2008_0806, mgrast_rel_2008_0917, mgrast_rel_2008_0919, mgrast_rel_2008_0923, mgrast_rel_2008_0924, rast_2008_0924, rast_rel_2008_04_23, rast_rel_2008_06_16, rast_rel_2008_06_18, rast_rel_2008_07_21, rast_rel_2008_08_07, rast_rel_2008_09_29, rast_rel_2008_09_30, rast_rel_2008_10_09, rast_rel_2008_10_29, rast_release_2008_09_29
Changes since 1.8: +2 -2 lines
Diff to previous 1.8
Removed duplicate "my" declaration from &find_orf_start(). -- /gdp

Revision 1.8 - (view) (download) (as text) (annotate) - [select for diffs]
Tue Feb 12 20:10:02 2008 UTC (11 years, 10 months ago) by golsen
Branch: MAIN
Changes since 1.7: +2 -2 lines
Diff to previous 1.7
Just some comments.

Revision 1.7 - (view) (download) (as text) (annotate) - [select for diffs]
Thu Dec 20 23:07:18 2007 UTC (11 years, 11 months ago) by gdpusch
Branch: MAIN
Changes since 1.6: +3 -3 lines
Diff to previous 1.6
Modified search rule for TTG START. -- /gdp

Revision 1.6 - (view) (download) (as text) (annotate) - [select for diffs]
Thu Dec 6 01:41:57 2007 UTC (12 years ago) by golsen
Branch: MAIN
Changes since 1.5: +18 -8 lines
Diff to previous 1.5
Add functions to reference selenoproteins, and add change the set
slightly.  Report function of best matching protein.  Optionally
report the id of the best matching protein.

Revision 1.5 - (view) (download) (as text) (annotate) - [select for diffs]
Sat Nov 24 01:11:24 2007 UTC (12 years ago) by golsen
Branch: MAIN
Changes since 1.4: +200 -8 lines
Diff to previous 1.4
Debugging and adding support of all the NCBI genetic codes.

Revision 1.4 - (view) (download) (as text) (annotate) - [select for diffs]
Fri Nov 23 00:33:31 2007 UTC (12 years ago) by golsen
Branch: MAIN
Changes since 1.3: +68 -34 lines
Diff to previous 1.3
Add support for pyrrolysyl proteins.  Also, major revision and clean-up
of the translation utilities in gjoseqlib.pm.

Revision 1.3 - (view) (download) (as text) (annotate) - [select for diffs]
Wed Nov 21 23:15:59 2007 UTC (12 years ago) by golsen
Branch: MAIN
Changes since 1.2: +47 -16 lines
Diff to previous 1.2
Add a command line tool for finding selenoproteins, and update the library
to support its options.  Most interestingly, the reference sequences are
now bundled in a perl module and used my default.

Revision 1.2 - (view) (download) (as text) (annotate) - [select for diffs]
Tue Nov 20 18:20:26 2007 UTC (12 years ago) by golsen
Branch: MAIN
Changes since 1.1: +0 -2 lines
Diff to previous 1.1
Just removing reference (commented out) to an old blast parse package.

Revision 1.1 - (view) (download) (as text) (annotate) - [select for diffs]
Tue Nov 20 18:16:16 2007 UTC (12 years ago) by golsen
Branch: MAIN
The beginnings of a package to help find proteins that break various rules.
First is finding selenoproteins.

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