[Bio] / FigKernelScripts / add_to_alignment.pl Repository:
ViewVC logotype

Log of /FigKernelScripts/add_to_alignment.pl

Parent Directory Parent Directory


Links to HEAD: (view) (download) (as text) (annotate)
Links to mgrast_dev_10262011: (view) (download) (as text) (annotate)
Sticky Tag:

Revision 1.8 - (view) (download) (as text) (annotate) - [select for diffs]
Sat Feb 19 18:12:52 2011 UTC (9 years, 1 month ago) by golsen
Branch: MAIN
CVS Tags: HEAD, 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_2011_0928, rast_rel_2014_0729, rast_rel_2014_0912
Changes since 1.7: +7 -5 lines
Diff to previous 1.7
Fix the libraries used for I/O.

Revision 1.7 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Jun 22 23:36:30 2009 UTC (10 years, 9 months ago) by golsen
Branch: MAIN
CVS Tags: rast_rel_2009_07_09, rast_rel_2009_0925, rast_rel_2010_0118, rast_rel_2010_0526, rast_rel_2010_0827, rast_rel_2010_0928, rast_rel_2010_1206, rast_rel_2011_0119
Changes since 1.6: +4 -3 lines
Diff to previous 1.6
Use faster version of add_to_alignment.

Revision 1.6 - (view) (download) (as text) (annotate) - [select for diffs]
Sat May 12 20:47:03 2007 UTC (12 years, 10 months ago) by golsen
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, mgrast_rel_2008_1110, mgrast_rel_2008_1110_v2, 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_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_release_2008_09_29
Changes since 1.5: +44 -19 lines
Diff to previous 1.5
Modifications to control ordering of sequences in representative sets and
in sequeneces added to an alignment.  Also new options to silently remove
sequences with duplicate ids.

Revision 1.5 - (view) (download) (as text) (annotate) - [select for diffs]
Sat May 12 20:12:56 2007 UTC (12 years, 10 months ago) by overbeek
Branch: MAIN
Changes since 1.4: +7 -2 lines
Diff to previous 1.4
add utilities for computing alignments

Revision 1.4 - (view) (download) (as text) (annotate) - [select for diffs]
Fri Dec 15 00:09:52 2006 UTC (13 years, 3 months ago) by overbeek
Branch: MAIN
Changes since 1.3: +19 -3 lines
Diff to previous 1.3
add ability to insert sequences into a tree

Revision 1.3 - (view) (download) (as text) (annotate) - [select for diffs]
Thu Dec 29 19:28:11 2005 UTC (14 years, 3 months ago) by golsen
Branch: MAIN
CVS Tags: caBIG-05Apr06-00, caBIG-13Feb06-00
Changes since 1.2: +5 -5 lines
Diff to previous 1.2
Make attempt to add a duplicate id nonfatal.  Having the program die
in the middle of a large number of adds is annoying.
Increase flexibility on return data type (array or reference to array)
in the function library.
Make the calls by reference in the program.

Revision 1.2 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Dec 5 18:56:37 2005 UTC (14 years, 4 months ago) by olson
Branch: MAIN
Changes since 1.1: +17 -0 lines
Diff to previous 1.1
Add license words.

Revision 1.1 - (view) (download) (as text) (annotate) - [select for diffs]
Tue Jun 7 02:25:13 2005 UTC (14 years, 10 months ago) by golsen
Branch: MAIN
CVS Tags: Root-bobdev_news, caBIG-00-00-00, caBIG-dataload-0, merge-bobdev_news-1, merge-bobdev_news-2, merge-bodev_news-3, merge-trunktag-bobdev_news-1, merge-trunktag-bobdev_news-2, merge-trunktag-bodev_news-3
Branch point for: Branch-bobdev_news
add_to_alignment FastaAlignment FastaSeqs > NewFastaAlignment
   - Add new sequences to an alignment without altering the relative
     alignments of the previous sequences.  New sequences are added
     one at a time, so their relative alignment (if any) is lost.
     The full sequence ids and descriptions are saved.

align_fasta  < FastaSeqs > FastaAlignment
   - Uses clustalw to produce an alignment from unaligned sequences.
     Deals with issues of clustal corrupting names.

clustal2fasta < Clustal.aln > FastaAlignment
   - Just a fairly clean clustal alignment reformatter.

This form allows you to request diffs between any two revisions of this file. For each of the two "sides" of the diff, select a symbolic revision name using the selection box, or choose 'Use Text Field' and enter a numeric revision.

  Diffs between and
  Type of Diff should be a

Sort log by:

MCS Webmaster
ViewVC Help
Powered by ViewVC 1.0.3