|
|
939dba20ee
|
first import lpls
|
2007-07-23 17:35:28 +00:00 |
|
|
|
54d271b841
|
go test data
|
2007-07-23 17:35:04 +00:00 |
|
|
|
a05d0faa0d
|
Lib updates
|
2007-07-23 17:33:21 +00:00 |
|
|
|
7ea87e646a
|
Added DAG plot to gobrowser module and smokers workflow.
|
2007-07-23 17:02:28 +00:00 |
|
|
|
155dfada5c
|
iups
|
2007-07-23 13:25:34 +00:00 |
|
|
|
9db5991108
|
|
2007-07-20 15:48:59 +00:00 |
|
|
|
98f53d3448
|
updates
|
2007-07-20 12:32:54 +00:00 |
|
|
|
7ee7aa968a
|
Initial import
|
2007-07-20 09:36:26 +00:00 |
|
|
|
dd04e28a62
|
Query fix
|
2007-07-05 18:49:24 +00:00 |
|
|
|
850deeec0d
|
Renamed gene identifers to gene_id
|
2007-07-05 18:40:29 +00:00 |
|
|
|
75c7c51708
|
DistanceToSelectionFunction
|
2007-07-05 18:36:59 +00:00 |
|
|
|
3f5d45d7af
|
Renamed smalltest workflow to smokers.
|
2007-07-05 18:24:45 +00:00 |
|
|
|
fae096afe4
|
Changed workflow name from smalltest to smokers, because it is heavily based
on the smokers dataset.
|
2007-07-05 13:20:52 +00:00 |
|
|
|
a503ffcdf8
|
Fixed linewidth in selection in scatter plots.
|
2007-07-05 11:57:21 +00:00 |
|
|
|
d29013a863
|
T-test now works, and outputs a histogram as well as t-values and p-values.
|
2007-07-03 16:25:38 +00:00 |
|
|
|
99987999db
|
Broke up a too long line.
|
2007-07-02 09:54:56 +00:00 |
|
|
|
884804c49a
|
Added a dummy for the t-test function. Will be updated when I have access to my
office computer tomorrow.
|
2007-06-28 21:48:13 +00:00 |
|
|
|
b637a5badc
|
Changed /usr/bin/python2.4 to /usr/bin/python, and hope that 2.5 will not have
trouble running the app.
|
2007-06-28 21:42:18 +00:00 |
|
|
|
4eaea2fe59
|
Added empty lists as default values for all_data and all_plots in Options, so
that subclasses of Options will work with the GUI without modifications.
|
2007-06-28 21:33:09 +00:00 |
|
|
|
7b20f44fef
|
Added a GO similarity function that does not do anything useful yet.
|
2007-06-22 15:37:59 +00:00 |
|
|
|
e5cd8a8077
|
Started on a function to enhance gene lists by using GO similarities.
Not in a usable state.
|
2007-06-22 15:37:22 +00:00 |
|
|
|
68cc583d2c
|
Added common_dimensions(ds) that lists common dimensions between two
datasets.
|
2007-06-22 15:35:45 +00:00 |
|
|
|
ff8833a22c
|
Added read functions for the medium and large smokers sets.
|
2007-06-21 10:28:10 +00:00 |
|
|
|
d6298a2d99
|
Ensures that the GO is only loaded once.
|
2007-06-21 10:26:35 +00:00 |
|
|
|
ff2c42902f
|
Commented out some log lines that just cluttered the log.
|
2007-06-21 10:25:17 +00:00 |
|
|
|
2eb3d71a5d
|
Moved data/smokers-med to data/smokers-medium.
|
2007-05-16 15:35:25 +00:00 |
|
|
|
91032d729e
|
Some more smoker data
|
2007-05-16 11:45:43 +00:00 |
|
|
|
7bdfdea23b
|
Added -d option to get all identifiers along a single dimension.
|
2007-05-16 10:30:54 +00:00 |
|
|
|
c7bfefe358
|
Fixed resnik distances.
|
2007-05-15 18:16:07 +00:00 |
|
|
|
335efe231a
|
go-gene-matrix takes a GO vs. GO distance matrix and a gene-go-mapping file
and makes a gene vs. go distance matrix based on the shortest distances found
between each gene and go term.
|
2007-05-15 18:15:51 +00:00 |
|
|
|
1ab558248c
|
Piping information through dataset -i works. Added names of planned features
to the dataset script.
|
2007-05-09 21:52:59 +00:00 |
|
|
|
7272eb63d2
|
Working on a script to query datasets without starting fluents.
|
2007-05-09 17:41:50 +00:00 |
|
|
|
ebe7621817
|
some biocondoctur utilities
|
2007-05-06 13:51:06 +00:00 |
|
|
|
f1301be67a
|
go-distance update.
|
2007-04-26 18:54:34 +00:00 |
|
|
|
a0faed2614
|
Forgot some ...
|
2007-04-24 17:21:40 +00:00 |
|
|
|
34ae426c86
|
Added correlation plot and moved colorbar to plots
|
2007-04-24 17:17:31 +00:00 |
|
|
|
90bb25eb55
|
added default mappable to None
|
2007-04-24 17:16:34 +00:00 |
|
|
|
31ac569c3e
|
Added colorbar shortcut
|
2007-04-24 17:04:29 +00:00 |
|
|
|
fefaffb2e3
|
go-distance seems to be able to calculate resnik now. Not asserted with
calculations by hand.
|
2007-04-04 19:08:50 +00:00 |
|
|
|
28f0f53e8a
|
go-distance script soon calculating resnik distances.
|
2007-04-03 13:08:48 +00:00 |
|
|
|
a5c3a1f154
|
A couple of extra lines of code in a script.
|
2007-03-27 13:02:22 +00:00 |
|
|
|
728c334e8a
|
ontology distance script now accumulates annotations correctly.
|
2007-03-26 23:15:14 +00:00 |
|
|
|
11eb3306b9
|
Works a bit better.
|
2007-03-26 17:18:26 +00:00 |
|
|
|
947cf8385f
|
Annotations on yeast from Stanford mdb.
|
2007-03-23 20:51:04 +00:00 |
|
|
|
0904a59310
|
Gene ontolgy distance script in C. Will hopefully speed up calculations when
finished.
|
2007-03-23 13:25:07 +00:00 |
|
|
|
6f19fe1b4b
|
Resnick distance matrix
|
2007-03-16 17:05:46 +00:00 |
|
|
|
0eff457910
|
Added biological process info to the small smokers example, and a README file to
explain the dataset, at least the non-trivial parts.
|
2007-03-15 23:57:35 +00:00 |
|
|
|
3dc1867be4
|
Added entrez-go-mapping that maps entrez IDs to GO terms based on a file of the form:
affy_id ::: geneid_1 /// geneid_2 ::: go(bp) ::: go(cc) ::: go(mf)
|
2007-03-15 23:47:24 +00:00 |
|
|
|
6fe4ff3c59
|
Added scripts folder for small but useful scripts.
|
2007-03-15 12:46:41 +00:00 |
|
|
|
b02773b4e6
|
pls loading plot now have correct name
|
2007-03-15 10:38:52 +00:00 |
|
