d52dbbd9be
Relocate wiki from trac
2023-01-25 13:36:26 +01:00
36146893e6
Fixed selections. points_inside_poly is deprecated, and all calls are therefore
...
rewritten to use Path.contains_points.
2014-04-04 19:16:59 +00:00
2b4da82165
Corrected URL to source code.
2013-10-17 08:24:43 +00:00
c612724378
Fixed bug that caused right-click in the identifier list to change the list's selection status.
2013-09-17 11:11:13 +00:00
1f2055d6b7
* Added selection directories. The selection/ directory in a project
...
should contain subdirectories per dimension. Selections are files within
these subdirectories ending in .sel
* Renamed Universe.__getent__ to Universe.__getitem__
2012-01-25 18:13:54 +00:00
4dcbff3647
Added reference to Selector objects to avoid the object from going to GC.
...
This change is triggered by changes to mpl, but should not break with
old versions.
2011-10-25 15:15:01 +00:00
660f649670
Some functions have been moved from scipy to numpy. Updated import statements to reflect this.
2011-10-21 22:04:11 +00:00
d0f307c135
Removed debug print statements.
2011-07-07 13:11:12 +00:00
4ec79d2d9a
Short code cleanup.
2011-06-02 15:14:21 +00:00
1845fe2ba0
Added rudimentary loading of annotation files.
2011-06-02 14:38:01 +00:00
bad06e0bb9
Removed unused import of the dataset module.
2011-06-02 14:07:42 +00:00
5c65dc7e2c
Removed old comments.
2011-06-02 13:22:25 +00:00
1c0ea0caee
Automatically load all datasets in the root data directory and add them to
...
navigator when project is loaded.
Recursion down in data hierarchy is not yet implemented.
2011-06-02 13:16:10 +00:00
e21cd7b323
More helpful error message if no project is specified.
2011-03-28 21:40:15 +00:00
6be624e872
Script to generate mapping files between identifiers found in tab separated files.
2011-03-24 08:46:17 +00:00
f1b3009f11
Fixed a bug in the output
2011-03-24 08:05:49 +00:00
19163988e3
Example project.
2011-03-17 10:49:08 +00:00
11fc34b1e3
Fixes #23 - Preserving the order of samples in subdata.
2011-03-08 09:27:06 +00:00
ed486ddf2e
Changed default directories for:
...
* Load dataset
* Import annotations
* Export annotations
to the correct directories in the current project.
2011-03-07 16:19:45 +00:00
ec71cbd7d7
Fixes previous broken commit.
2011-03-06 23:11:29 +00:00
dc8da8823e
Partial fix to #22 . Laydi will require a project directory to run. If the
...
project directory does not exist, i.e. if a new project should be created, the
new -n switch is required. New syntax to run laydi is now
{{{
laydi [options] </path/to/project>
}}}
2011-03-06 23:08:09 +00:00
b5d2e8e181
Changed the name of the current Project class to ProjectView, to make room for a new
...
non-GUI project class.
2011-03-06 22:33:51 +00:00
21133af8f7
Removing old r-laydi directory.
2011-03-06 21:27:36 +00:00
a1ab79024e
Adding simple workflow named "default" with PCA, PLS and LPLS. Changed the program to
...
use this as the default workflow.
2011-03-06 15:27:16 +00:00
633465e4c8
* Added function fro reading laydi selections.
...
* Fixed bug in documentation of write.laydi.selection.
2011-03-06 14:38:24 +00:00
6a70e7a4db
Removed old laydi.R
2011-03-06 14:32:37 +00:00
1d94b46777
Added method for writing laydi selections.
2011-03-05 16:28:07 +00:00
98a9d581af
Updated R package. The package now works and is documented. The only implemented
...
method is writing ftsv datasets from R.
2011-03-05 15:47:33 +00:00
260e0ad715
First attemt on laydi R package.
2011-03-05 13:49:15 +00:00
80e64afd04
Renamed R package to R.
2011-03-04 14:25:33 +00:00
f18b49b1c7
R package for communicating with Laydi.
2011-03-04 14:24:55 +00:00
f29d48e879
Laydi project directory for testing the new project structure.
2011-01-12 16:57:10 +00:00
ebda69049e
Started working on Dimension and Universe objects (which will probably be renamed before actually being used in the program).
2011-01-05 15:48:00 +00:00
5f1f4d0dc2
Renamed directory illumina2ftsv to illumina to gather all Illumina-relevant
...
scripts there. Added laydi-annot-illumina script that generates Laydi
annotation files from Illumina text annotation files.
2011-01-04 11:43:24 +00:00
f001d12584
Working version.
2010-09-27 19:45:56 +00:00
3d68d27a56
Begun writing illumina data to ftsv converter.
2010-09-24 15:18:52 +00:00
b6d1eb022e
Fixes error during make in parent directory.
2010-06-30 08:30:15 +00:00
2e253450cd
Removed debug print statments.
2010-01-19 17:08:50 +00:00
259add178e
Removed matplotlibrc
2010-01-19 16:53:35 +00:00
256133275c
* Changed build behaviour to suit newer Ubuntu releases (at least 9.10).
...
* Added -c option to generate intial configuration file and directories. This will create
the file ~/.laydi and the directories ~/laydi/datasets and ~/laydi/workflows.
* Removed debug print statements.
2010-01-19 16:45:51 +00:00
c50d34effc
Changed from deprecated scipy.stats.mean() to numpy.mean().
2009-11-22 18:25:43 +00:00
f2afcbc3fc
Fixed description to run laydi after checkout.
2009-11-19 21:58:07 +00:00
1fbef303ff
Fixed warning about deprecated matplotlib setting.
2009-08-22 20:11:48 +00:00
e28b66a294
Removed annoying debug print statement.
2009-08-22 19:50:00 +00:00
58e7f6422b
Added build info in README
2009-08-22 19:48:20 +00:00
4ce6963428
Fixing selections and drawing in newer versions of matplotlib.
2009-08-22 17:41:06 +00:00
14de18c507
IMPORTANT: identifiers in the resulting csv file were not correct before this patch.
2009-02-28 15:38:29 +00:00
53cbd8fed7
Added write_csv function to export a dataset to regular comma/tab/whatever separated files.
2009-02-09 23:05:09 +00:00
0858fd00e5
ftsv2csv - script to convert ftsv files to comma/tab separated values.
2009-02-09 22:12:39 +00:00
a1e57d7820
Smokers workflow automatically loads annotations on the go-terms and gene_ids dimensions.
2009-02-06 23:48:25 +00:00
