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Release 7: 2023-11-08
Updated docker. New single-cell specific pipeline using Seurat.
Tool/DB
Version
Details
Tool type
ASAP_data PostgreSQL database
v6
Database
Gene Ontology
2020-Jan
Database
Ensembl vertebrates
104
Database
Ensembl genomes
58
Database
Human Cell Atlas Ontology
NA
Human Cell Atlas Ontology used to create gene sets.
Database
Flybase Anatomy Ontology
NA
Flybase Anatomy Ontology used to create gene sets.
Database
fabdavid/asap_run
v6
Python
python3
3.11.6
h5py
3.9.0
leidenalg
0.10.1
loompy
3.0.7
matplotlib
3.6.3
numba
0.57.1
numpy
1.24.2
pandas
1.5.3
scikit-learn
1.3.1
scipy
1.10.1
umap-learn
0.5.4
R
R
4.3.1
hdf5r
1.3.8
scran
1.28.2
XVector
0.40.0
SC3
1.28.3
scater
1.28.0
cluster
2.1.4
limma
3.56.2
DESeq2
1.40.2
sva
3.48.0
genefilter
1.82.1
M3Drop
3.10.6
rhdf5
2.45.2
Seurat
4.4.0
future.apply
1.11.0
plotly
4.10.2
statmod
1.5.0
devtools
2.4.5
data.table
1.14.8
jsonlite
1.8.7
Rtsne
0.16
bit64
4.0.5
R6
2.5.1
sanon
1.6
reticulate
1.34.0
edgeR
3.42.4
Java
java
17.0.9
Docker