Skip to content

Latest commit

 

History

History
 
 

data

Folders and files

NameName
Last commit message
Last commit date

parent directory

..
agora
agora
 
 
bigg
bigg
 
 
carveme
carveme
 
 
ebrahim
ebrahim
 
 
kbase
kbase
 
 
optflux
optflux
 
 
path
path
 
 
README.md
README.md
 
 
agora.csv.gz
agora.csv.gz
 
 
bigg.csv.gz
bigg.csv.gz
 
 
bigg_taxonomy.csv.gz
bigg_taxonomy.csv.gz
 
 
carveme.csv.gz
carveme.csv.gz
 
 
clustering_features.csv.gz
clustering_features.csv.gz
 
 
ebrahim.csv.gz
ebrahim.csv.gz
 
 
environment.yml
environment.yml
 
 
kbase.csv.gz
kbase.csv.gz
 
 
manuscript_panel_figure.xlsx
manuscript_panel_figure.xlsx
 
 
metric_pca.csv.gz
metric_pca.csv.gz
 
 
metric_tsne.csv.gz
metric_tsne.csv.gz
 
 
metric_umap.csv.gz
metric_umap.csv.gz
 
 
models.tsv.gz
models.tsv.gz
 
 
optflux.csv.gz
optflux.csv.gz
 
 
path.csv.gz
path.csv.gz
 
 
rf_model_classCluster.Rdata
rf_model_classCluster.Rdata
 
 
rf_model_classCollection.Rdata
rf_model_classCollection.Rdata
 
 
score_pca.csv.gz
score_pca.csv.gz
 
 
score_tsne.csv.gz
score_tsne.csv.gz
 
 
score_umap.csv.gz
score_umap.csv.gz
 
 

README.md

Results

All results were generated using DTU Computing Center's high-performance computing infrastructure.

Environment

Due to user permission restrictions we could not use Docker images but instead used a conda virtual environment. This environment is fully defined in the file environment.yml which can be used to reproduce the results.

conda env create -f environment.yml

That said, if you are able to use Docker in your setting you can get an image that should be very close to the above environment using:

docker pull opencobra/memote:0.9.6

Licensing

All results are published under the CC BY 4.0 license.