greenelab/biobombe issues and pull requests

#90 - Add TCGA Classify Module README

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

#89 - Adding Results for TCGA Classify Module

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

#88 - Update overview figure

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

#87 - Update Stability Figure Names

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

#86 - Remake Supplementary Figure 1

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

#85 - Add Comment

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

#84 - BioBombe Results Data Update

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

#83 - Adding Main Figure for GTEx Application

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

#82 - Data Update: Adding gtex xcell results

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

#81 - Network Projection Results

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

#80 - Adding Gene Set Coverage Analysis Figure

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

#79 - Finalize Stability Results and Figures

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

#78 - Finalize Correlation Results and Figures

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

#77 - Finalize Reconstruction Results

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

#76 - Hotfix Directory Saving

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

#75 - Download Archived Results

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

#74 - Initializing Pipelines

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

#73 - Migrate module numbers

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

#72 - Reorder Modules to Squish in New Module 7

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

#71 - Add Coverage Analysis

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

#70 - Updating Supplementary Figure - Initial Parameter Sweep

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

#69 - Updates to TCGA Classify Module

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

#68 - Update Stability Figures

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

#67 - Update Correlation Figures

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

#66 - Creating Reconstruction Summary Figure

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

#65 - Rebrand biobombe

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

#64 - Generating Supplementary Figure from Initial Z Parameter Sweep

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

#63 - Analysis to Classify Cancertype

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

#62 - Update to Classification of Top 50 Mutated Genes

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

#61 - Quick Fix - Add Seed Setting

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

#60 - Renumbering TCGA Classify Module

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

#59 - Update Module Numbering

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

#58 - Hex Color Tables

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

#57 - TCGA Classification Analysis Scripts

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

#56 - Updating Stability Analysis + Migration to New Module

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

#55 - fix to 5 seeds

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

#54 - Updating Stability Visualizations

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

#53 - Updating Across Z Stability Analysis

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

#52 - Updating test for within z model stability

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

#51 - Adding Documentation and Updating Module 4 (Analyzing Components)

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

#50 - Minor Updates to Documentation and Environment

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

#49 - Another Data PR!

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

#48 - Updating Hetnets

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

#47 - fix path

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

#46 - Bolstering Documentation

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

#45 - Move SVCCA

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

#44 - Updating Interpret Compression Analysis

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

#43 - Neutrophil Analysis Visualization and Results

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

#42 - Visualizing GTEX VAE z=2 vs. z=3 feature interpretation

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

#41 - Downloading GSE103706

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

#40 - Quick Fix - Pulling MAD genes from file instead of computing

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

#39 - Adding a new module that will store specific secondary analysis on GTEX data

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

#38 - Fix celltype bug

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

#37 - Saving Sample Correlation Data

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

#36 - Update README

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

#35 - Tracking within SVCCA analysis for both training and testing

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

#34 - Adding an Interpret-Compression Analysis + Results

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

#33 - Sample Correlation for HGSC Subtypes

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

#32 - Add MAD genes output to data processing

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

#31 - remove old, redundant files saved with a different filename

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

#30 - Adding GSEA analysis scripts

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

#29 - Adding in Forgotten File e135a2e

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

#28 - Describe Directory Structure in Module README

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

#27 - Add SVCCA Analysis

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

#26 - Adding Sample Correlation Analysis

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

#25 - Adding Reconstruction Analysis

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

#24 - Fix merge error

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

#23 - Updating Ensemble Z Matrix Analysis

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

#22 - Update Ensemble Z Matrix Search

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

#21 - Updating Parameter Sweep to Include Results for GTEx and TARGET

Pull Request - State: closed - Opened by gwaybio over 6 years ago - 7 comments

#20 - Adding TARGET and GTEx to 1.initial-z-sweep

Pull Request - State: closed - Opened by gwaybio almost 7 years ago

#19 - Adding GTEx data processing script

Pull Request - State: closed - Opened by gwaybio almost 7 years ago

#18 - Adding TARGET Data

Pull Request - State: closed - Opened by gwaybio almost 7 years ago - 1 comment

#17 - Update Hetnet permutations notebook

Pull Request - State: closed - Opened by gwaybio almost 7 years ago

#16 - Update PMACS helper script

Pull Request - State: closed - Opened by gwaybio almost 7 years ago

#15 - Adding CancerType DataFrame

Pull Request - State: closed - Opened by gwaybio almost 7 years ago

#14 - colorblindr dependency

Issue - State: closed - Opened by gwaybio almost 7 years ago

#13 - Updating Initial Z Parameter Sweep Results

Pull Request - State: closed - Opened by gwaybio almost 7 years ago - 1 comment

#12 - Add saving correlation to EZ sweep

Pull Request - State: closed - Opened by gwaybio almost 7 years ago - 2 comments

#11 - Organize config and Prep Initial Z Sweep

Pull Request - State: closed - Opened by gwaybio almost 7 years ago - 2 comments

#10 - Reorganize hetnet scripts into separate module

Pull Request - State: closed - Opened by gwaybio almost 7 years ago

#9 - Adding Expression Download and Processing Module

Pull Request - State: closed - Opened by gwaybio almost 7 years ago

#8 - Adding Ensemble z sweep module

Pull Request - State: closed - Opened by gwaybio almost 7 years ago - 1 comment

#7 - Migrate Z Parameter Sweep Results from Tybalt Here

Pull Request - State: closed - Opened by gwaybio almost 7 years ago - 1 comment

#6 - Adding xCell Cell-Type Genesets

Pull Request - State: closed - Opened by gwaybio almost 7 years ago - 1 comment

#5 - Update to Entrez Download

Pull Request - State: closed - Opened by gwaybio almost 7 years ago - 1 comment

#4 - Adding MSigDB Permutations

Pull Request - State: closed - Opened by gwaybio almost 7 years ago - 4 comments

#3 - Adding script to download data

Pull Request - State: closed - Opened by gwaybio almost 7 years ago

#2 - Creating MSigDB hetnet

Pull Request - State: closed - Opened by gwaybio almost 7 years ago - 6 comments

#1 - Update README and LICENSE; Add MSigDB matrix generation

Pull Request - State: closed - Opened by gwaybio almost 7 years ago - 1 comment

GitHub / greenelab/biobombe issues and pull requests