allencellmodeling/fish_morphology_code issues and pull requests

#166 - Updates to public quilt data

Pull Request - State: open - Opened by mfs4rd 26 days ago - 2 comments

#165 - Running Analysis using our own Data

Issue - State: open - Opened by amilworks over 2 years ago - 2 comments

#164 - Pub quilt

Pull Request - State: open - Opened by vianamp almost 3 years ago

#163 - Running Inference

Issue - State: closed - Opened by amilworks almost 3 years ago - 3 comments

#162 - Data/raw images to quilt

Pull Request - State: open - Opened by tanyasg over 3 years ago - 1 comment

#161 - cos model with transcript feats

Pull Request - State: open - Opened by tanyasg over 3 years ago

#160 - replate date typo

Issue - State: open - Opened by tanyasg over 3 years ago

#159 - Data/filtered plots

Pull Request - State: closed - Opened by tanyasg almost 4 years ago

#158 - Data/zero scores

Pull Request - State: closed - Opened by tanyasg almost 4 years ago

#157 - Data/revised paper plots

Pull Request - State: closed - Opened by tanyasg about 4 years ago - 2 comments

#156 - Feature/napari correct

Pull Request - State: closed - Opened by tanyasg about 4 years ago

#155 - Data/actn2 probe images

Pull Request - State: closed - Opened by tanyasg about 4 years ago

#154 - Data/rnaseq plot csv

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

#153 - Feature/notebook util fns

Pull Request - State: closed - Opened by donovanr over 4 years ago - 1 comment

#152 - clean up github README

Issue - State: closed - Opened by donovanr over 4 years ago - 1 comment
Labels: data release

#151 - clean up plots notebook for "quick start" link

Issue - State: closed - Opened by donovanr over 4 years ago - 1 comment
Labels: data release

#150 - add plots notebook to new repo

Issue - State: open - Opened by donovanr over 4 years ago
Labels: data release

#149 - Data/go public

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

#148 - pin to stable version of global structure ds

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

#147 - DATA/assaydev_code_update

Pull Request - State: closed - Opened by vianamp over 4 years ago
Labels: data release

#146 - distribute cleaned up csv

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

#145 - merge figure 6 data into manuscript plots df so calysta can plot from main df

Issue - State: closed - Opened by donovanr over 4 years ago
Labels: data release

#144 - add relative distance in cell metric in plots

Pull Request - State: closed - Opened by calystay over 4 years ago
Labels: data release

#143 - Data/ad upload

Pull Request - State: closed - Opened by vianamp over 4 years ago
Labels: data release

#142 - Data/ad upload -- add readme and distribute to matheus data set

Pull Request - State: closed - Opened by vianamp over 4 years ago
Labels: data release

#141 - dataset go public: POST PREPRINT

Issue - State: closed - Opened by donovanr over 4 years ago - 1 comment
Labels: data release

#140 - dataset go public: PRE PREPRINT

Issue - State: closed - Opened by donovanr over 4 years ago - 1 comment
Labels: data release

#139 - Data/consolidate and publish

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

#138 - Data/consolidate and publish

Pull Request - State: closed - Opened by donovanr over 4 years ago
Labels: data release

#137 - Data/consolidate and publish

Pull Request - State: closed - Opened by donovanr over 4 years ago
Labels: data release

#136 - fix distribute/merge code for seq data rorydm -> tanyasg

Issue - State: closed - Opened by donovanr over 4 years ago
Labels: bug, data release

#135 - Data/datacheck scrnaseq counts

Pull Request - State: closed - Opened by tanyasg over 4 years ago
Labels: data release

#134 - Data/datacheck scrnaseq raw

Pull Request - State: closed - Opened by tanyasg over 4 years ago
Labels: data release

#133 - Data/2d autocontrasted fields and single cells

Pull Request - State: closed - Opened by donovanr over 4 years ago
Labels: data release

#132 - Data/2d segmented fields

Pull Request - State: closed - Opened by donovanr over 4 years ago
Labels: data release

#131 - Admin: add q3d citation to tooling references

Issue - State: closed - Opened by evamaxfield over 4 years ago - 1 comment
Labels: data release

#130 - dataset aggregation and consolidation script

Pull Request - State: closed - Opened by donovanr over 4 years ago
Labels: data release

#129 - add files for dataset check: calystay/3d_actn2_segmentation

Pull Request - State: closed - Opened by calystay over 4 years ago
Labels: data release

#128 - add files for dataset check: calystay/probe_structure_classifier

Pull Request - State: closed - Opened by calystay over 4 years ago - 1 comment
Labels: data release

#127 - dataset check: calystay/probe_localization, Issue#92

Pull Request - State: closed - Opened by calystay over 4 years ago
Labels: data release

#126 - Data/datacheck nonstructure features

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

#125 - Data/datacheck nonstructure fields

Pull Request - State: closed - Opened by tanyasg over 4 years ago
Labels: data release

#124 - Data/datacheck structure features

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

#123 - Bugfix/matheus col names

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

#122 - Data/plot df

Pull Request - State: closed - Opened by donovanr over 4 years ago
Labels: data release

#121 - download 2D nuclear masks, issue#91

Pull Request - State: closed - Opened by calystay over 4 years ago
Labels: data release

#120 - Feature/cnn globalorder

Pull Request - State: closed - Opened by vianamp over 4 years ago - 4 comments
Labels: data release

#119 - dataset check: calystay/3d_actn2_segmentation

Issue - State: closed - Opened by donovanr over 4 years ago
Labels: data release

#118 - dataset check: tanyasg/scrnaseq_raw

Issue - State: closed - Opened by donovanr over 4 years ago - 1 comment
Labels: data release

#117 - dataset check: tanyasg/2d_nonstructure_single_cell_features

Issue - State: closed - Opened by donovanr over 4 years ago
Labels: data release

#116 - dataset check: tanyasg/2d_nonstructure_fields

Issue - State: closed - Opened by donovanr over 4 years ago - 1 comment
Labels: data release

#115 - dataset check: merge datasets and push to public

Issue - State: closed - Opened by donovanr over 4 years ago - 1 comment
Labels: data release

#114 - Data/scrnaseq raw

Pull Request - State: closed - Opened by donovanr over 4 years ago
Labels: data release

#113 - dataset check: Fix README for FISH probe localization

Issue - State: closed - Opened by evamaxfield over 4 years ago - 1 comment
Labels: data release

#112 - Data/plot df

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

#111 - Data/scrnaseq raw

Pull Request - State: closed - Opened by tanyasg over 4 years ago - 1 comment

#110 - Data/structure score reorg

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

#109 - dataset check: rorydm/manuscript_plots

Issue - State: closed - Opened by donovanr over 4 years ago
Labels: data release

#108 - add probe loc scores to small df

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

#107 - move regression code into function

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

#106 - Bugfix/test load data -- specify dtypes

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

#105 - add test for loading data for plots

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

#104 - Data/zeiss nonstructure fish

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

#103 - add quilt3 to main requirements

Issue - State: closed - Opened by donovanr over 4 years ago

#102 - Data/zeiss nonstructure fish

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

#101 - Data/nonstructure quilt

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

#100 - Merging manual MYH6/7 probe localization scores into cell profiler features

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

#99 - dataset check: tanyasg/2d_autocontrasted_single_cell_features

Issue - State: closed - Opened by donovanr almost 5 years ago - 2 comments
Labels: data release

#98 - dataset check: rorydm/scrnaseq_data

Issue - State: closed - Opened by donovanr almost 5 years ago - 1 comment
Labels: data release

#97 - dataset check: rorydm/2d_segmented_fields

Issue - State: closed - Opened by donovanr almost 5 years ago
Labels: data release

#96 - dataset check: rorydm/2d_autocontrasted_fields_and_single_cells

Issue - State: closed - Opened by donovanr almost 5 years ago
Labels: data release

#95 - dataset check: matheus/assay_dev_fish_analysis

Issue - State: closed - Opened by donovanr almost 5 years ago - 3 comments
Labels: data release

#94 - dataset check: calystay/segmented_nuc_labels

Issue - State: closed - Opened by donovanr almost 5 years ago - 2 comments
Labels: data release

#93 - dataset check: calystay/probe_structure_classifier

Issue - State: closed - Opened by donovanr almost 5 years ago
Labels: data release

#92 - dataset check: calystay/probe_localization

Issue - State: closed - Opened by donovanr almost 5 years ago
Labels: data release

#91 - dataset check: calystay/2d_nuclear_masks

Issue - State: closed - Opened by donovanr almost 5 years ago - 1 comment
Labels: data release

#90 - Data/add becky loc scores

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

#89 - Feature/distribute probe loc

Pull Request - State: closed - Opened by donovanr almost 5 years ago - 4 comments
Labels: data release

#88 - check score rounding code

Issue - State: closed - Opened by donovanr almost 5 years ago - 1 comment

#87 - reorganize data upload / dowload / compute code

Issue - State: closed - Opened by donovanr almost 5 years ago - 1 comment

#86 - Reorg/analysis code

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

#85 - fix nuclei-less cells getting flagged as touching image border

Issue - State: open - Opened by tanyasg almost 5 years ago - 1 comment

#84 - Feature/filter border cells

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

#83 - Bugfix/mv download

Pull Request - State: closed - Opened by donovanr about 5 years ago

#82 - offload figure functions to .py files

Issue - State: closed - Opened by donovanr about 5 years ago

#81 - add bin function to download mattheus data

Issue - State: closed - Opened by donovanr about 5 years ago

#80 - Data/classifier features

Pull Request - State: closed - Opened by tanyasg about 5 years ago

#79 - Add single cell tiffs to quilt contrasted image test package

Issue - State: closed - Opened by tanyasg about 5 years ago

#78 - Data/cellprofiler image set

Pull Request - State: closed - Opened by tanyasg about 5 years ago

#77 - move z-scores inside adata and add struct pred code

Pull Request - State: closed - Opened by donovanr about 5 years ago

#76 - Merge bumped quilt3distribute into reorg branch

Pull Request - State: closed - Opened by donovanr about 5 years ago

#75 - Reorg/analysis code

Pull Request - State: closed - Opened by donovanr about 5 years ago - 1 comment

#74 - Prefix auto documentation generation

Pull Request - State: closed - Opened by evamaxfield about 5 years ago
Labels: bug

#73 - Data/add scrnaseq

Pull Request - State: closed - Opened by donovanr about 5 years ago

#72 - make anndata function

Issue - State: closed - Opened by donovanr about 5 years ago

#71 - move to centralized namespace

Issue - State: closed - Opened by donovanr about 5 years ago

#70 - add feature metadata / anndata

Issue - State: closed - Opened by donovanr about 5 years ago

#69 - add scrnaseq dataset

Issue - State: closed - Opened by donovanr about 5 years ago

#68 - add instructions to readme for running cell profiler and uploading features

Issue - State: closed - Opened by donovanr about 5 years ago

#67 - Data/scores and cotrasted images in quilt

Pull Request - State: closed - Opened by donovanr about 5 years ago

GitHub / allencellmodeling/fish_morphology_code issues and pull requests