Fix Dropout - #17

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safooray wants to merge 99 commits into

Commits on Aug 9, 2016

fixed import issues, added 'sensitivity' submodule
cooperlab
committed
ef91690

Commits on Aug 12, 2016

changed max step size back to 1
Safoora Yousefi
committed
75255bb
Merge pull request #7 from cooperlab/nandebug
safooray
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3e6a517

Commits on Aug 16, 2016

added model analysis functions
cooperlab
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31df3f3
Fixed dimensionality issues with numpy matrices versus arrays
cooperlab
committed
67ea239

Commits on Aug 17, 2016

added clustering functionality
cooperlab
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f97b62e
Merge branch 'sensitivity' of https://github.com/cooperlab/SurvivalNet into sensitivity
fatemeh91
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21f0bcd
Update RiskCluster.py
Lee Cooper
authored
a320dfe

Commits on Aug 18, 2016

Added GSEA-related functions.
cooperlab
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3c8acda
Revert "Added GSEA-related functions."
cooperlab
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5cfe9e8

Commits on Aug 19, 2016

Converted to matplotlib. Added KM and ScatterPair functions.
cooperlab
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760d1f7
Updated submodule name to "analysis".
cooperlab
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4dc87b7
Moved matrix conversion into function.
cooperlab
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d27dc06
Added stdout messaging. Removed unused input parameter. Reduced default value for N.
cooperlab
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cf7f54d
Fixed imports, added docstrings.
cooperlab
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0ef86de
Merge pull request #13 from cooperlab/matplotlib
Lee Cooper
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fc5d28f

Commits on Aug 21, 2016

Update Visualize.py
Lee Cooper
authored
6a1afdb
Update RiskCluster.py
Lee Cooper
authored
b9dea69

Commits on Aug 22, 2016

Delete PlotRanked.py
Lee Cooper
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1e43fe1
Delete Visualize.py
Lee Cooper
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53af236
Create Visualization.py
Lee Cooper
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85585e6
Create PathwayAnalysis.py
Lee Cooper
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242e243
Create FeatureAnalysis.py
Lee Cooper
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de9b179
Create ReadGMT.py
Lee Cooper
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2ad7021
Create SSGSEA.py
Lee Cooper
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e715904
Update __init__.py
Lee Cooper
authored
7d0ccca
Merge pull request #14 from cooperlab/refactor
Lee Cooper
authored
955efeb

Commits on Aug 23, 2016

Update __init__.py
Lee Cooper
authored
dcb51d7

Commits on Aug 27, 2016

Fixed KM plots for empty values
cooperlab
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dd9240f
Fixed track colors for CNV values
cooperlab
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76512b6
Exposed plot numbers for each plot type as parameter
cooperlab
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1c272c0

Commits on Sep 12, 2016

Added functions for writing gradients to disk for GSEA/SSGSEA
cooperlab
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3bcbe7e
Removed GSEA function - use GenePattern instead
cooperlab
committed
9d4c8c0

Commits on Mar 27, 2017

fixed normalization of risk gradients
cooperlab
committed
5a3ea40

Commits on Apr 22, 2017

Update README.md
safooray
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74797ee
Update README.md
safooray
authored
d14fed0
Update README.md
safooray
authored
0646090
merge experiment with master
safooray
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3d369a2

Commits on Apr 23, 2017

fix analysis according to dropout fix
safooray
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043d373
fix analysis according to dropout fix
safooray
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cf24585
organized examples
safooray
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8cb9661

Commits on Apr 24, 2017

organize usage
safooray
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1912919
Update README.md
safooray
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cc60d3e
Merge pull request #18 from CancerDataScience/cleanup
safooray
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ed9a79d
Delete run.sh
safooray
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824045c
Delete train_set
safooray
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83ebf9c
Delete val_set
safooray
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585bcbd
update git ignore
safooray
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da98b3d
Merge branch 'cleanup' of https://github.com/cooperlab/survivalnet into cleanup
safooray
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142ccc9
update .gitignore
safooray
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8433970
Update README.md
safooray
authored
7c24a6f
Merge pull request #19 from CancerDataScience/cleanup
safooray
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9e93090

Commits on Jul 21, 2017

Create x
safooray
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dabf3aa
Added example dataset.
safooray
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f19ab52
Delete x
safooray
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491def2

Commits on Aug 22, 2017

fixed Run.py
safooray
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2ec5d75
fixed Run.py
safooray
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005902d
fixed constants in Run.py
safooray
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66fafb2
String concat cleanup
safooray
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90cdf6a
cleanup and doc
safooray
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b11fc15

Commits on Aug 23, 2017

added docstrings
safooray
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e46c2d1
Update README.md
safooray
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b14a206
Update README.md
safooray
authored
fd65500
Update README.md
safooray
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3c50673

Commits on Aug 30, 2017

error fix
safooray
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0bbbdea
Merge branch 'master' of https://github.com/CancerDataScience/SurvivalNet
safooray
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a7f8ccd
removed scipy code
safooray
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e68bd1e
removed LineSearch class
safooray
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010654e

Commits on Aug 31, 2017

Adding Docker Image Installation guidelines
cramraj8
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98928f0
model cleanup
safooray
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3de20ae
model cleanup
safooray
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b05cc54
model cleanup
safooray
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d4761ec
Modified Documentation
cramraj8
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0452f43
Merge pull request #22 from CancerDataScience/docket-installatoin-guide
safooray
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708acc6
Update LICENSE
Lee Cooper
authored
3b5a0f0
Update README.md
Lee Cooper
authored
94e6a28

Commits on Sep 5, 2017

Changing the Docker Cloud repository name.
cramraj8
authored
57d6175
Update README.md
Lee Cooper
authored
c9bab5e
Update README.md
Lee Cooper
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3ad3764
changed the docker cloud repo name and link
cramraj8
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6fec30c

Commits on Sep 6, 2017

error fix
safooray
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b7865c0
save model
safooray
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cbf8c56
Simplification
safooray
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210495c
added requirements
safooray
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7917d42
Update README.md
safooray
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9620031
Merge pull request #24 from CancerDataScience/analysis-fix2
Lee Cooper
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890eb88
Merge branch 'master' into documentation
Lee Cooper
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d266319
Merge pull request #23 from CancerDataScience/documentation
Lee Cooper
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5c23be8
Merge pull request #26 from CancerDataScience/requirements
Lee Cooper
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0db3eec

Commits on Sep 7, 2017

Update README.md
Lee Cooper
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ea69044

Commits on Sep 8, 2017

Merge branch 'master' into analysis-fix
safooray
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ad54772
Merge pull request #15 from CancerDataScience/analysis-fix
safooray
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1a00b08

Commits on Sep 9, 2017

Commits on Sep 12, 2017

added final model
safooray
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da27410
added final model
safooray
committed
c5b498a
Merge pull request #28 from CancerDataScience/dtype-error-fix
safooray
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de26567

Commits on Oct 19, 2017

Update README.md
safooray
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ad9ff1b
Update README.md
safooray
authored
83b99ff