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License: MIT License
Ideas, code and results of the 2018 CytoData hackathon
License: MIT License
There are new folders called profiles_cp
and they were presumably previously names profiles
. Its possible this was done when we were reprocessing the data.
@jccaicedo Any clue what might have happened here?
Only Bioactives-BBBC022-Gustafsdottir
has both profiles_cp
and profiles
. The others have only profiles_cp
.
I'm trying to copy the BBBC022 profiles from cytodata s3 bucket to set up a benchmark pipeline for our cell painting method development. I can list the files in the bucket, but cannot copy or sync anything. Could you please change the permissions accordingly?
Thanks.
Treatments in BBBC037 are in the column Metadata_pert_name
instead of Metadata_gene_name
.
Aggregation code should be changed in the Python and R code examples.
The data sets are hosted and publicly available at
s3://cytodata/
All images, single cell features as sqlite files and aggregated features on replicate level can be found under
s3://cytodata/datasets/
A detailed description of all data is missing.
There are multiple versions of single cell features in cell painting gallery. Could you describe which processing tasks were done on them? I figured out the _augmented
, which is features + metadata. Where could I find information about processing steps for the other files? Are they the same as in the source papers?
For example: _normalized
- what kind of normalization was used?
_feature_select
- what methodology was used?
Basically, any information that I could use to reproduce the processing steps used on the datasets.
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