galaxy

aggregate_binned_scores_in_intervals.xml

Remove unspecified build validator from aggregate_scores_in_intervals2 tool because it can work with a custom fasta.

2011-08-24 14:38:29 -04:00

aggregate_scores_in_intervals.py

Require Python 2.6+ and remove various compatibility patches for 2.4 and 2.5

2013-04-09 11:57:38 -04:00

column_maker.py

Import clean up and documentation for compute tool.

2013-03-18 10:09:43 -04:00

column_maker.xml

First pass standardizing to 'dataaset' from 'query'.

2011-01-27 13:46:20 -05:00

cor.py

Removed the remainder of the tool version subdirectories.

2008-03-03 18:38:57 +00:00

cor.xml

Use mako template in tool help so that dynamic image paths can be used. Fixes #141

2012-08-07 09:40:51 -04:00

correlation.pl

Removed the remainder of the tool version subdirectories.

2008-03-03 18:38:57 +00:00

correlation.xml

Removed the remainder of the tool version subdirectories.

2008-03-03 18:38:57 +00:00

count_gff_features.py

Add count GFF features tool and tests. Tool counts the number of features in a GFF file; this is different than the number of lines b/c GFF features are often multiline.

2011-03-21 13:01:24 -04:00

count_gff_features.xml

Add count GFF features tool and tests. Tool counts the number of features in a GFF file; this is different than the number of lines b/c GFF features are often multiline.

2011-03-21 13:01:24 -04:00

dna_filtering.py

White-list expressions executed by filtering and dna_filtering tools.

2013-11-04 14:55:00 -05:00

dna_filtering.xml

First pass standardizing to 'dataaset' from 'query'.

2011-01-27 13:46:20 -05:00

filtering.py

Merge Pull Request #244 .

2013-11-04 23:42:06 -06:00

filtering.xml

Add parameter to filtering tool to optionally skip header lines. Add test for new parameter usage as well.

2013-01-29 10:37:16 -05:00

generate_matrix_for_pca_lda.pl

Modify tools contributed by Chungoo Park (cxp440@psu.edu) for Linear Discriminant Analysis, and drawing Receiver Operating Characteristic plots; add a new tool to 'Generate A Matrix for using PC and LDA'; remove redundant 'Principal Component Analysis' tool.

2010-07-16 14:52:52 -04:00

generate_matrix_for_pca_lda.xml

Use mako template in tool help so that dynamic image paths can be used. Fixes #141

2012-08-07 09:40:51 -04:00

grouping.py

Grouping tool: make error clearer when a line doesn't have entry on grouped column

2011-10-04 23:11:23 -04:00

grouping.xml

Improve docs for Grouping tool. Closes #576

2011-06-06 15:30:02 -04:00

gsummary.py

Sync hashbangs

2010-04-01 20:36:31 -04:00

gsummary.xml

First pass standardizing to 'dataaset' from 'query'.

2011-01-27 13:46:20 -05:00

gsummary.xml.groups

Adjust image links in tools to work with a proxy prefix [Brad Chapman]. Fixes #141

2010-12-14 14:22:13 -05:00

lda_analy.xml

Modify tools contributed by Chungoo Park (cxp440@psu.edu) for Linear Discriminant Analysis, and drawing Receiver Operating Characteristic plots; add a new tool to 'Generate A Matrix for using PC and LDA'; remove redundant 'Principal Component Analysis' tool.

2010-07-16 14:52:52 -04:00

mine_wrapper.py

Add Maximal Information-based Nonparametric Exploration (MINE) tool.

2011-12-16 12:54:21 -05:00

MINE.xml

Add Maximal Information-based Nonparametric Exploration (MINE) tool.

2011-12-16 12:54:21 -05:00

plot_from_lda.xml

Update help and description for Draw ROC plot tool. Questions and comments should be directed to Chungoo Park.

2011-04-15 13:55:45 -04:00

r_wrapper.sh

Make r_wrapper.sh bourne/dash compatible.

2010-09-27 21:53:25 -04:00

wiggle_to_simple.py

Better exception handling in wiggle_to_simple converter.

2008-04-16 14:08:53 +00:00

wiggle_to_simple.xml

Syncrhonize wiggle_to_simple.xml tool test cases, fix newlines.

2013-11-07 12:56:48 -05:00