greenelab connectivity-search-analyses issues

greenelab / connectivity-search-analyses

hetnet connectivity search research notebooks (previously hetmech)

BSD 3-Clause "New" or "Revised" License

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Inverse Hyperbolic Sine Transformation Was Applied to DWPCs Reported on the Connectivity Search Website

#177 NegarJanani opened 3 months ago
4
DWPC degree effect analyses for mansucript

#176 dhimmel closed 2 years ago
2
explore/connectivity-search-backend-pull-79.ipynb

#175 dhimmel closed 3 years ago
0
Analyses that depend on path counts now filtered from the database

#174 dhimmel closed 3 years ago
12
Update epilepsy analyses to work with the full database

#173 dhimmel closed 3 years ago
0
Update conda environment installation

#172 dhimmel closed 3 years ago
1
explore: plot null dwpc distributions

#171 dhimmel closed 4 years ago
3
Integrate path importance score and gene circadian score

#170 yhao-compbio closed 5 years ago
1
Explore multiple ways of assigning circadian scores to drug-disease paths

#169 yhao-compbio closed 5 years ago
2
Explore setting a metaedge-specific threshold

#168 dhimmel closed 4 years ago
1
Extract edges from hetionet that connect compound to treatment

#167 yhao-compbio closed 5 years ago
0
fix conflict issues in environment.yml

#166 yhao-compbio closed 5 years ago
0
Add analysis of CircaDB scores

#165 yhao-compbio closed 3 years ago
3
Mapped CircaDB and treatment data to hetionet IDs

#164 yhao-compbio closed 5 years ago
2
Add CircaDB dataset

#163 yhao-compbio closed 5 years ago
0
Add Dosing Time Matters dataset

#162 dhimmel closed 5 years ago
0
Notebook looking for clusters of compounds based on metapath p-values

#161 ben-heil closed 5 years ago
6
Analyzed Compounds with Divergent Predictions

#160 ben-heil closed 5 years ago
10
Upgraded logic to switch row elements if the disease is in the source column

#159 ben-heil closed 5 years ago
0
Comparison of rephetio metapath contributions and unsupervised p-values

#158 ben-heil closed 5 years ago
4
Examine parameter estimates

#157 zietzm closed 4 years ago
0
Gamma hurdle parameter heatmaps

#156 zietzm closed 5 years ago
2
Added notebook to compare compound rankings

#155 ben-heil closed 5 years ago
1
Epilepsy path ranking

#154 ben-heil closed 5 years ago
1
P_values of zero in the hetmech database

#153 ben-heil closed 3 years ago
14
Changed the case of percent_of_DWPC to match the change in hetio

#152 ben-heil closed 5 years ago
2
Example notebook with consolidated path scores across metapaths

#151 dhimmel closed 5 years ago
6
Assessing path and intermediate node contributions to a node-pair search

#150 dhimmel opened 5 years ago
1
Relocate package to hetio/hetmatpy

#149 dhimmel closed 5 years ago
0
Archival deposits for HetMat archives and bulk DWPCs

#148 dhimmel closed 4 years ago
6
add find_packages()

#147 gwaybio closed 5 years ago
2
Fix import errors

#146 zietzm closed 5 years ago
1
Fix error when importing hetmech.matrix

#145 zietzm closed 5 years ago
1
[WIP] XSwap analysis

#144 zietzm closed 5 years ago
1
XSwap prior probability notebooks

#143 dhimmel closed 3 years ago
0
HetMat updates to address memory leak

#142 dhimmel closed 5 years ago
0
Memory leak in bulk computation of permuted DWPCs

#141 dhimmel closed 5 years ago
1
DWPCs & null DWPCs for all metapaths up to length 3

#140 dhimmel closed 6 years ago
2
Update environment on 2018-08-23

#139 dhimmel closed 6 years ago
0
Explore p-values for simulated DWPC values

#138 zietzm closed 6 years ago
4
Empirical p-value NB

#137 zietzm closed 6 years ago
2
Distribution of p-values hetionet vs permutation

#136 zietzm closed 6 years ago
1
[WIP] Gamma hurdle goodness-of-fit

#135 zietzm closed 6 years ago
2
Alternatives to XSwap for hetnet permutation

#134 dhimmel closed 4 years ago
24
Bulk computation for all metapaths <= length 3

#133 dhimmel closed 6 years ago
1
Update pQTL analysis with adjusted DWPCs

#132 dhimmel closed 6 years ago
2
Pipeline: use grouped writer for adjusted-DWPCs

#131 dhimmel closed 6 years ago
1
Simplify pipeline code

#130 dhimmel closed 6 years ago
1
Upgrade env on 2018-07-17

#129 dhimmel closed 6 years ago
2
create_archive: enable splitting zip output

#128 dhimmel closed 6 years ago
0