WayScience/Benchmarking_NF1_data issues and pull requests

#45 - Rename github repo

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

#44 - Current CP illum pipeline is not automated + saves images as different bit depth

Issue - State: open - Opened by jenna-tomkinson almost 2 years ago - 1 comment
Labels: bug, enhancement

#43 - Add platemap visualization

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

#42 - Correct cp pipeline and rerun

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

#41 - ComplexHeatmap error for Pybasic Cellpose pipeline

Issue - State: open - Opened by jenna-tomkinson almost 2 years ago
Labels: bug

#40 - MeasureImageIntensity not measuring whole image intensity

Issue - State: closed - Opened by jenna-tomkinson about 2 years ago - 1 comment
Labels: enhancement

#39 - Lack of generalized notebook/function to run extraction through all plates

Issue - State: closed - Opened by jenna-tomkinson about 2 years ago - 1 comment

#38 - Run plates with cp pipelines

Pull Request - State: closed - Opened by jenna-tomkinson about 2 years ago - 1 comment

#37 - Missing index.csv file in DP Projects

Issue - State: open - Opened by gwaybio about 2 years ago

#36 - Revert "run plate 2 through cp and extract sc"

Pull Request - State: closed - Opened by jenna-tomkinson about 2 years ago - 1 comment

#35 - run plate 2 through cp and extract sc

Pull Request - State: closed - Opened by jenna-tomkinson about 2 years ago

#34 - Improved CellProfiler segmentation parameters -> Need to rerun Plate 1

Issue - State: closed - Opened by jenna-tomkinson about 2 years ago - 1 comment
Labels: enhancement

#33 - perform IC on plate 2

Pull Request - State: closed - Opened by jenna-tomkinson about 2 years ago - 1 comment

#32 - Linear model and power analysis for both DP feature sets

Issue - State: open - Opened by gwaybio about 2 years ago - 1 comment

#31 - DP feature linear modeling and visualization

Pull Request - State: closed - Opened by gwaybio about 2 years ago - 1 comment

#30 - Perform power analysis for CP features

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

#29 - Create umap figure with ggplot

Pull Request - State: closed - Opened by gwaybio about 2 years ago - 1 comment

#28 - DeepProfiler data stat analysis

Pull Request - State: closed - Opened by jenna-tomkinson about 2 years ago

#27 - Create ComplexHeatmaps for Pilot Data plate 1

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

#26 - Add linear model analysis

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

#25 - Visualizing the KS test results

Pull Request - State: closed - Opened by gwaybio about 2 years ago - 3 comments

#24 - Linking single cells between DeepProfiler projects

Issue - State: open - Opened by jenna-tomkinson about 2 years ago
Labels: enhancement

#23 - deepprofiler project processing features

Pull Request - State: closed - Opened by jenna-tomkinson about 2 years ago - 3 comments

#22 - heatmap and ks-test analysis

Pull Request - State: closed - Opened by jenna-tomkinson about 2 years ago

#21 - NF1 UMAP Stats

Pull Request - State: closed - Opened by jenna-tomkinson about 2 years ago - 3 comments

#20 - Second Plate Issues

Issue - State: closed - Opened by jenna-tomkinson about 2 years ago - 1 comment
Labels: notes

#19 - Add second NF1 dataset and correct the images

Pull Request - State: closed - Opened by jenna-tomkinson about 2 years ago - 2 comments

#18 - Re-run pipelines with updated platemap

Issue - State: closed - Opened by gwaybio about 2 years ago - 1 comment

#17 - Edit 4_processing_features module

Pull Request - State: closed - Opened by jenna-tomkinson about 2 years ago - 2 comments

#16 - Apply pycytominer-transform to real world CP-derived SQLite

Issue - State: open - Opened by gwaybio about 2 years ago - 5 comments

#15 - Adding single cell CellProfiler morphology feature pipeline

Pull Request - State: closed - Opened by gwaybio over 2 years ago - 1 comment

#14 - Completing conda environments and adding to gitignore

Pull Request - State: closed - Opened by gwaybio over 2 years ago - 1 comment

#13 - adding/fixing documentation and figures

Pull Request - State: closed - Opened by jenna-tomkinson over 2 years ago - 3 comments

#12 - fixed README

Pull Request - State: closed - Opened by jenna-tomkinson over 2 years ago

#11 - add README documentation

Pull Request - State: closed - Opened by jenna-tomkinson over 2 years ago - 1 comment

#10 - Add cp module

Pull Request - State: closed - Opened by jenna-tomkinson over 2 years ago - 2 comments

#9 - Add pipelines and documentation for extracting features

Pull Request - State: closed - Opened by jenna-tomkinson over 2 years ago - 2 comments

#8 - SQLite File Creation Issue

Issue - State: closed - Opened by jenna-tomkinson over 2 years ago - 1 comment
Labels: notes

#7 - adding code and README

Pull Request - State: closed - Opened by jenna-tomkinson over 2 years ago - 2 comments

#6 - update IC pipeline and add corrected images

Pull Request - State: closed - Opened by jenna-tomkinson over 2 years ago

#5 - Add images to 0_download_data

Pull Request - State: closed - Opened by jenna-tomkinson over 2 years ago - 3 comments

#4 - Open data access

Issue - State: closed - Opened by gwaybio over 2 years ago - 7 comments
Labels: enhancement, notes

#3 - Add illumination correction pipeline

Pull Request - State: closed - Opened by jenna-tomkinson over 2 years ago - 7 comments

#2 - 1 preprocessing data

Pull Request - State: closed - Opened by jenna-tomkinson over 2 years ago - 2 comments

#1 - add .gitignore

Pull Request - State: closed - Opened by jenna-tomkinson over 2 years ago - 1 comment

GitHub / WayScience/Benchmarking_NF1_data issues and pull requests