raphael-group hotnet2 issues

raphael-group / hotnet2

HotNet2 is an algorithm for finding significantly altered subnetworks in a large gene interaction network

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Any comments on a similar method - MashUp?

#45 Firedrops opened 3 years ago
0
makeHeatFile.py scores -hf data/heats/pan12.gene2mutsig.txt or mutsig flag?

#44 cgpu closed 5 years ago
2
How to find Visualization results on disk?

#43 qindan2008 opened 5 years ago
1
Error exsecute HotNet2

#42 adj9 opened 5 years ago
11
Py23 compatibility

#41 evanbiederstedt opened 6 years ago
1
Incorrect Edges Lead to Disconnected Components

#40 dnusinow closed 6 years ago
2
Added Travis config, ported package to Python3.x

#39 evanbiederstedt closed 6 years ago
1
Permuted networks were not put into subdirectories

#38 whtop closed 6 years ago
1
Improve network support

#37 matthewreyna closed 6 years ago
0
Running HotNet2 over a custom network

#36 aallahyar opened 6 years ago
2
Fix script modes, shebang lines

#35 0xaf1f opened 7 years ago
0
updating release tags

#34 0xaf1f closed 6 years ago
1
Request - Technical Documentation

#33 cthoyt opened 7 years ago
1
Preparing the permutation files for hotnet2

#32 ysbioinfo closed 6 years ago
1
Consensus visualization only shows interactions from single network

#31 matthewreyna opened 7 years ago
0
Minor bug fixes

#30 matthewreyna closed 7 years ago
0
Update HotNet2 network permutation

#29 matthewreyna closed 7 years ago
0
Tests Failing

#28 lganel closed 7 years ago
0
Error in findThreshold mutations

#27 jamesrpriest closed 6 years ago
1
Update configuration files for examples

#26 matthewreyna closed 8 years ago
1
Fix bug in filter_cnas of heat.py

#25 TeoSakel closed 7 years ago
0
implement start_index

#24 TeoSakel closed 7 years ago
0
Fix multicore bug in permuteNetwork.py

#23 TeoSakel closed 7 years ago
0
Quickly check results of code using simulated data

#22 matthewreyna closed 8 years ago
1
Add consensus statistical test and new web output

#21 mdml closed 7 years ago
5
Fix error where samples with an SNV *and* CNA in the same gene were double-counted

#20 mdml closed 8 years ago
2
Updated automated consensus procedure

#19 matthewreyna closed 8 years ago
2
Added deltas argument to runHotNet2.py and hotnet2/run.py

#18 matthewreyna closed 8 years ago
1
`bin/findComponents.py` only accepts heat scores in JSON format

#17 matthewreyna closed 8 years ago
0
Automated delta selection

#16 jovianyu closed 8 years ago
3
Update RWR for directed graphs

#15 matthewreyna closed 8 years ago
1
Correct beta values in iref/hprd configs

#14 mdml closed 9 years ago
0
Remove all lingering references to alpha

#13 mdml closed 9 years ago
0
Update and modernize web output

#12 mdml closed 9 years ago
0
--alpha Arguments written in hprd.config and irefindex.config

#11 JYLeeBioinfo closed 9 years ago
3
Fix influence matrix creation

#10 mdml closed 9 years ago
1
Visualization color scale

#9 prnakka closed 9 years ago
0
HINT & MULTINET influence matrices

#8 jamesrpriest closed 6 years ago
1
Gene & Module Selection

#7 dwaggott opened 9 years ago
0
burden test

#6 dwaggott closed 9 years ago
2
Update viz

#5 mdml closed 10 years ago
10
set `addtl_genes` to be a `set()` by default

#4 mdml closed 10 years ago
2
Improve performance of hotnet2.induce_infmat method

#3 jveldridge closed 10 years ago
0
Restrict permutation test to network genes

#2 jveldridge closed 10 years ago
0
Website can now take display scores instead of heat scores

#1 LaconicPneumonic closed 10 years ago
2