Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / greenelab/biobombe issues and pull requests

#197 - Chioma ran module 0 for Target

Pull Request - State: closed - Opened by rando2 8 months ago - 1 comment

#196 - Testing bio bombe vscode

Pull Request - State: closed - Opened by Chioma-Opara 8 months ago - 2 comments

#195 - where is model?

Issue - State: open - Opened by wenyuhaokikika over 1 year ago

#194 - build conda environment

Issue - State: open - Opened by Mingjiang-git over 2 years ago - 4 comments

#193 - Update analysis-pipeline.sh

Pull Request - State: closed - Opened by AshirBorah almost 4 years ago - 3 comments

#192 - Reference GB Paper

Pull Request - State: closed - Opened by cgreene over 4 years ago

#191 - Increasing resolution on primary figures for publication

Pull Request - State: closed - Opened by gwaybio almost 5 years ago

#190 - Update Citation to Genome Biology

Issue - State: closed - Opened by gwaybio almost 5 years ago

#189 - Adding Vince and Updating Citation Info

Pull Request - State: closed - Opened by gwaybio almost 5 years ago - 4 comments

#188 - Adding Simulation Experiment - Importance of Compression Feature Number

Pull Request - State: closed - Opened by gwaybio about 5 years ago - 3 comments

#187 - Rerun Signature Module with All TARGET samples

Issue - State: closed - Opened by gwaybio over 5 years ago

#186 - Adding Unequal Variance to Signature Analysis T-Test

Pull Request - State: closed - Opened by gwaybio over 5 years ago

#185 - Adding Algorithm and Latent Dimensionality Execution Time analysis

Pull Request - State: closed - Opened by gwaybio over 5 years ago - 1 comment

#183 - Updating Logo and Description in README

Pull Request - State: closed - Opened by gwaybio over 5 years ago

#182 - Add Vince as an Author

Issue - State: closed - Opened by gwaybio over 5 years ago

#181 - make landing page for paper

Pull Request - State: closed - Opened by vincerubinetti over 5 years ago

#180 - fix typo in link

Pull Request - State: closed - Opened by gwaybio almost 6 years ago

#179 - hotfix gene expr sig readme

Pull Request - State: closed - Opened by gwaybio almost 6 years ago

#178 - Update Documentation and Module 10

Pull Request - State: closed - Opened by gwaybio almost 6 years ago - 1 comment

#177 - [Data Only] Adding in Results that I didn't add before

Pull Request - State: closed - Opened by gwaybio almost 6 years ago

#176 - Updating TCGA Figure - Adjusted weight absolute sum

Pull Request - State: closed - Opened by gwaybio almost 6 years ago - 1 comment

#175 - Splitting Supplementary Figure Off GTEx Figure

Pull Request - State: closed - Opened by gwaybio almost 6 years ago - 1 comment

#174 - Updating Axis Labels and Points in Supplementary Fig (top rank)

Pull Request - State: closed - Opened by gwaybio almost 6 years ago - 1 comment

#173 - Adding NBL Cell Line T-Test Results

Pull Request - State: closed - Opened by gwaybio almost 6 years ago - 1 comment

#171 - Update TCGA Ensemble Model Coefficient Figure (panel h)

Issue - State: closed - Opened by gwaybio about 6 years ago

#170 - Split GTEx Figure G and H into New Supplementary Figure

Issue - State: closed - Opened by gwaybio about 6 years ago

#169 - Change y axis label for Feature Rank Plot

Issue - State: closed - Opened by gwaybio about 6 years ago - 1 comment

#168 - Generate Supplementary Figure Describing GTEx and TCGA Sex Features

Issue - State: closed - Opened by gwaybio about 6 years ago - 2 comments

#167 - Updating Coefficient Interpretation to All Feature Ensemble

Pull Request - State: closed - Opened by gwaybio about 6 years ago - 1 comment

#166 - Updating Coverage Figure

Pull Request - State: closed - Opened by gwaybio about 6 years ago - 2 comments

#165 - Validate MYCN status in NBL Cell Lines

Issue - State: closed - Opened by gwaybio about 6 years ago - 1 comment

#164 - Find Sex Feature in TCGA

Issue - State: closed - Opened by gwaybio about 6 years ago - 1 comment

#163 - Adding Separation Analysis Module

Pull Request - State: closed - Opened by gwaybio about 6 years ago - 4 comments

#162 - Adding Ensemble Classification Analysis

Pull Request - State: closed - Opened by gwaybio about 6 years ago - 1 comment

#159 - Add Ensemble Analysis to TCGA FIgure

Issue - State: closed - Opened by gwaybio about 6 years ago

#158 - Move E and F of GTEx Figure to Supplement

Issue - State: closed - Opened by gwaybio about 6 years ago

#157 - Missing x axis label in main coverage figure

Issue - State: closed - Opened by gwaybio about 6 years ago

#156 - Plotting Mean Delta AUROC

Pull Request - State: closed - Opened by gwaybio about 6 years ago

#155 - Updates to Extract Top Neutrophil and Monocyte Feature Scores across External Datasets

Pull Request - State: closed - Opened by gwaybio about 6 years ago - 1 comment

#154 - Plot Change in AUC

Issue - State: closed - Opened by gwaybio about 6 years ago - 1 comment

#153 - Additional Analysis: Applications to External Datasets

Issue - State: closed - Opened by gwaybio about 6 years ago - 1 comment

#152 - Adding Zenodo DOI

Pull Request - State: closed - Opened by gwaybio about 6 years ago

#151 - Update Analysis Pipeline

Pull Request - State: closed - Opened by gwaybio about 6 years ago

#150 - Renaming Module 6

Pull Request - State: closed - Opened by gwaybio about 6 years ago - 1 comment

#149 - Update panels in coverage figure

Issue - State: closed - Opened by gwaybio about 6 years ago

#148 - Rename Module 6 to `6.biobombe-projection`

Issue - State: closed - Opened by gwaybio about 6 years ago

#147 - Adding Feature Rank Analysis + Documentation

Pull Request - State: closed - Opened by gwaybio about 6 years ago - 1 comment

#146 - Updating Coverage Analysis

Pull Request - State: closed - Opened by gwaybio about 6 years ago - 2 comments

#145 - Adjust Top Feature Dimension Plots

Pull Request - State: closed - Opened by gwaybio about 6 years ago - 2 comments

#144 - [Data Only] Updating GpC4CM for TCGA and TARGET

Pull Request - State: closed - Opened by gwaybio about 6 years ago

#143 - Updating GTEx Supplementary Figure z -> k

Pull Request - State: closed - Opened by gwaybio about 6 years ago

#142 - Update GTEx Supplementary Figure

Issue - State: closed - Opened by gwaybio about 6 years ago

#141 - Quick Fix of Implementation Figure

Pull Request - State: closed - Opened by gwaybio about 6 years ago

#140 - More z -> k migration

Pull Request - State: closed - Opened by gwaybio about 6 years ago - 1 comment

#139 - Updating GTEx Figure from z dim to k dim

Pull Request - State: closed - Opened by gwaybio about 6 years ago

#138 - Updating Weight Results and Figures

Pull Request - State: closed - Opened by gwaybio about 6 years ago

#137 - Adding TCGA Module README

Pull Request - State: closed - Opened by gwaybio about 6 years ago

#135 - Make Mission of Predicting Cancer-Types and Mutations Clear

Issue - State: closed - Opened by gwaybio about 6 years ago

#134 - Adding Analysis to Predict Mutation Status using Hand Picked Features

Pull Request - State: closed - Opened by gwaybio about 6 years ago - 2 comments

#133 - Replace z with k in Overview Figures

Pull Request - State: closed - Opened by gwaybio about 6 years ago - 1 comment

#132 - Update to `k` dimensions instead if `z` dimensions

Pull Request - State: closed - Opened by gwaybio about 6 years ago - 1 comment

#131 - Visualizing Top Feature Dimension across Algorithms and Geneset Collections

Pull Request - State: closed - Opened by gwaybio about 6 years ago - 1 comment

#130 - Consider changing `Z` dimension to `k` dimension

Issue - State: closed - Opened by gwaybio about 6 years ago - 1 comment

#129 - Update GTEx Geneset Panels C and D

Issue - State: closed - Opened by gwaybio about 6 years ago

#128 - Remove Redundant TCGA Supplementary Figures

Pull Request - State: closed - Opened by gwaybio about 6 years ago

#127 - Remove Redundant Supplementary TCGA Figures

Issue - State: closed - Opened by gwaybio about 6 years ago

#126 - Update GTEx Supplementary Figure

Issue - State: closed - Opened by gwaybio about 6 years ago - 1 comment

#125 - Improve Efficiency of Plotting Top BioBombe Scores

Pull Request - State: closed - Opened by gwaybio about 6 years ago - 2 comments

#124 - Add Classifier Top Model Interpretation Table

Pull Request - State: closed - Opened by gwaybio about 6 years ago - 1 comment

#123 - Adding Sample Notebook

Pull Request - State: closed - Opened by gwaybio about 6 years ago

#122 - Update coverage figure

Pull Request - State: closed - Opened by gwaybio about 6 years ago

#121 - Updating Component Assessment Module

Pull Request - State: closed - Opened by gwaybio about 6 years ago - 1 comment

#120 - Splitting TCGA Supplementary Figures Across Pages

Pull Request - State: closed - Opened by gwaybio about 6 years ago - 1 comment

#119 - Removing Boxplot Fill Colors in Stability Figures

Pull Request - State: closed - Opened by gwaybio about 6 years ago - 1 comment

#118 - Remove lines from approach figure

Pull Request - State: closed - Opened by gwaybio about 6 years ago

#117 - Add analysis to supplementary TCGA classification

Issue - State: closed - Opened by gwaybio about 6 years ago

#116 - Add Transcription Factor Analysis to Supplementary Coverage Figure

Issue - State: closed - Opened by gwaybio about 6 years ago - 1 comment

#115 - Restructure visualize_genesets.R

Issue - State: closed - Opened by gwaybio about 6 years ago - 1 comment

#114 - Update Figure 6 - Coverage Analysis

Issue - State: closed - Opened by gwaybio about 6 years ago

#113 - Add Supplementary Table for Signature Genes

Issue - State: closed - Opened by gwaybio about 6 years ago - 1 comment

#112 - Updating Processing of External Datasets

Pull Request - State: closed - Opened by gwaybio about 6 years ago - 2 comments

#108 - Visualize Max Score Feature by Dimension + Algorithm

Issue - State: closed - Opened by gwaybio about 6 years ago - 1 comment

#107 - Add TCGA Analysis

Issue - State: closed - Opened by gwaybio about 6 years ago

#104 - Update the colors in the stability boxplot figures

Issue - State: closed - Opened by gwaybio about 6 years ago

#100 - Update Figure 1 - Add numbering for each BioBombe analysis bit

Issue - State: closed - Opened by gwaybio about 6 years ago

#99 - Update Stability Figure Names

Pull Request - State: closed - Opened by gwaybio about 6 years ago - 1 comment

#98 - Update Figure 5 - TCGA Classify

Issue - State: closed - Opened by gwaybio about 6 years ago - 3 comments

#97 - Update TCGA Supplementary Figure

Issue - State: closed - Opened by gwaybio about 6 years ago - 1 comment

#96 - Update GTEx Figure to Include Correlation

Issue - State: closed - Opened by gwaybio about 6 years ago - 1 comment

#95 - Update Supplementary Figure S4 - Stability

Issue - State: closed - Opened by gwaybio about 6 years ago

#94 - Update Supplementary Figure 3 - Correlation Summary

Issue - State: closed - Opened by gwaybio about 6 years ago

#93 - Add Results Table For TCGA Classifier Figure Panel D

Issue - State: closed - Opened by gwaybio about 6 years ago

#92 - Update sup fig 1

Pull Request - State: closed - Opened by gwaybio about 6 years ago

#91 - Adding all coverage analysis results

Pull Request - State: closed - Opened by gwaybio about 6 years ago