Ecosyste.ms: Docker

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johnjun094/scgsea : 0.3.8

DockerFile for benchmarking ssGSEA for single-cell RNA-seq

Ubuntu 20.04.2 LTS

Latest release: about 1 year ago - 388 downloads - 924 dependencies

Dependencies

@PKGNAME@ @VERSION@
AnnotationDbi 1.54.1
BH 1.75.0-0
Biobase 2.52.0
BiocGenerics 0.38.0
BiocIO 1.2.0
BiocManager 1.30.16
BiocNeighbors 1.10.0
BiocParallel 1.26.0
BiocSingular 1.8.1
BiocVersion 3.13.1
Biostrings 2.60.1
DBI 1.1.1
DDRTree 0.1.5
DESeq2 1.32.0
DelayedArray 0.18.0
DelayedMatrixStats 1.14.0
FNN 1.1.3
GenomeInfoDb 1.28.0
GenomeInfoDbData 1.2.6
GenomicRanges 1.44.0
HSMMSingleCell 1.12.0
IRanges 2.26.0
KEGGREST 1.32.0
KernSmooth 2.23-20
MASS 7.3-54
MAST 1.18.0
Matrix 1.3-3
MatrixGenerics 1.4.0
MatrixModels 0.5-0
R.methodsS3 1.8.1
R.oo 1.24.0
R.utils 2.10.1
R6 2.5.0
RANN 2.6.1
RBGL 1.68.0
RColorBrewer 1.1-2
RCurl 1.98-1.3
ROCR 1.0-11
RSQLite 2.2.7
RSpectra 0.16-0
RUnit 0.4.32
Rcpp 1.0.6
RcppAnnoy 0.0.18
RcppArmadillo 0.10.5.0.0
RcppEigen 0.3.3.9.1
RcppGSL 0.3.8
RcppGSLExample 0.0.3
RcppHNSW 0.3.0
RcppProgress 0.4.2
RcppProgressArmadillo 0.2
RcppProgressETA 0.1
RcppProgressExample 0.2
RcppZiggurat 0.1.6
Rdpack 2.1.2
RdpackTester 1.0
Rfast2 0.0.9
Rfast 2.0.3
Rtsne 0.15
S4Vectors 0.30.0
ScaledMatrix 1.0.0
Seurat 4.0.3
SeuratDisk 0.0.0.9019
SeuratObject 4.0.2
SingleCellExperiment 1.14.1
SparseM 1.81
SummarizedExperiment 1.22.0
TFisher 0.2.0
TH.data 1.0-10
VGAM 1.1-5
XML 3.99-0.6
XVector 0.32.0
abind 1.4-5
annotate 1.70.0
ape 5.5
askpass 1.1
base64enc 0.1-3
base 4.1.0
beachmat 2.8.0
beachtest 1.0.0
beeswarm 0.4.0
biocViews 1.60.0
bit64 4.0.5
bit 4.0.4
bitops 1.0-7
blob 1.2.1
boot 1.3-28
bslib 0.2.5.1
caTools 1.18.2
cachem 1.0.5
class 7.3-19
cli 2.5.0
cluster 2.1.2
codetools 0.2-18
colorspace 2.0-1
combinat 0.0-8
commonmark 1.7
compiler 4.1.0
conquer 1.0.2
cowplot 1.1.1
cpp11 0.2.7
crayon 1.4.1
crosstalk 1.1.1
curl 4.3.1
data.table 1.14.0
datasets 4.1.0
deldir 0.2-10
densityClust 0.3
digest 0.6.27
docopt 0.7.1
dplyr 1.0.6
dqrng 0.3.0
ellipsis 0.3.2
enrichR 3.0
fansi 0.5.0
farver 2.1.0
fastICA 1.2-2
fastmap 1.1.0
fitdistrplus 1.1-5
foreign 0.8-81
formatR 1.11
fs 1.5.0
futile.logger 1.4.3
futile.options 1.0.1
future.apply 1.7.0
future 1.21.0
genefilter 1.74.0
geneplotter 1.70.0
generics 0.1.0
getopt 1.20.3
ggbeeswarm 0.6.0
ggplot2 3.3.3
ggrepel 0.9.1
ggridges 0.5.3
globals 0.14.0
glue 1.4.2
goftest 1.2-2
gplots 3.1.1
grDevices 4.1.0
graph 1.70.0
graphics 4.1.0
grid 4.1.0
gridExtra 2.3
gtable 0.3.0
gtools 3.9.2
hdf5r 1.3.3
hms 1.1.0
htmltools 0.5.1.1
htmlwidgets 1.5.3
httpuv 1.6.1
httr 1.4.2
ica 1.0-2
igraph 1.2.6
irlba 2.3.3
isoband 0.2.4
jquerylib 0.1.4
jsonlite 1.7.2
kernlab 0.9-29
labeling 0.4.2
lambda.r 1.2.4
later 1.2.0
lattice 0.20-44
lazyeval 0.2.2
leiden 0.3.8
lifecycle 1.0.0
limma 3.48.0
listenv 0.8.0
littler 0.3.12
lmtest 0.9-38
locfit 1.5-9.4
log4r 0.3.2
magrittr 2.0.1
mathjaxr 1.4-0
matrixStats 0.59.0
memoise 2.0.0
metap 1.4
methods 4.1.0
mgcv 1.8-35
mime 0.10
miniUI 0.1.1.1
mixtools 1.2.0
mnormt 2.0.2
monocle 2.20.0
morebeach 1.0.0
morebeachtests 1.0.0
multcomp 1.4-17
multtest 2.48.0
munsell 0.5.0
mutoss 0.1-12
mvtnorm 1.1-2
mvtnormAPI 1.0-0
nlme 3.1-152
nnet 7.3-16
numDeriv 2016.8-1.1
openssl 1.4.4
optparse 1.7.3
org.testing.db 0.1
parallel 4.1.0
parallelly 1.26.0
patchwork 1.1.1
pbapply 1.4-3
pheatmap 1.0.12
pillar 1.6.1
pkgconfig 2.0.3
plogr 0.2.0
plotly 4.9.4
plotrix 3.8-1
plyr 1.8.6
png 0.1-7
polyclip 1.10-0
prettyunits 1.1.1
progress 1.2.2
promises 1.2.0.1
proxy 0.4-26
purrr 0.3.4
qlcMatrix 0.9.7
quantreg 5.86
rappdirs 0.3.3
rbibutils 2.2
remotes 2.4.0
reshape2 1.4.4
restfulr 0.0.13
reticulate 1.20
rjson 0.2.20
rlang 0.4.11
rpart 4.1-15
rsvd 1.0.5
sandwich 3.0-1
sass 0.4.0
scales 1.1.1
scater 1.20.1
scattermore 0.7
sctransform 0.3.2
scuttle 1.2.0
segmented 1.3-4
shiny 1.6.0
sitmo 2.0.1
slam 0.1-48
sn 2.0.0
snow 0.4-3
sourcetools 0.1.7
sparseMatrixStats 1.4.0
sparsesvd 0.2
spatial 7.3-14
spatstat.core 2.1-2
spatstat.data 2.1-0
spatstat.geom 2.1-0
spatstat.sparse 2.0-0
spatstat.utils 2.1-0
splines 4.1.0
stats4 4.1.0
stats 4.1.0
stringi 1.6.2
stringr 1.4.0
survival 3.2-11
sys 3.4
tcltk 4.1.0
tensor 1.5
testRcppClass 0.1
testRcppInterfaceExporter 0.1.0
testRcppInterfaceUser 0.1.0
testRcppModule 0.1
testRcppPackage 0.1.0
tibble 3.1.2
tidyr 1.1.3
tidyselect 1.1.1
tmvnsim 1.0-2
tools 4.1.0
translations 4.1.0
utf8 1.2.1
utils 4.1.0
uwot 0.1.10
vctrs 0.3.8
vipor 0.4.5
viridis 0.6.1
viridisLite 0.4.0
withr 2.4.2
xtable 1.8-4
yaml 2.2.1
zlibbioc 1.38.0
zoo 1.8-9

numpy 1.23.1
openpyxl 3.0.9
packaging 23.1
pandas 1.4.4
natsort 8.4.0
networkx 2.8.7
numba 0.53.1
Pillow 10.0.0
PyYAML 5.3.1
Pygments 2.3.1
XlsxWriter 3.0.3
anndata 0.8.0
biothings-client 0.3.0
certifi 2023.5.7
charset-normalizer 3.2.0
contourpy 1.1.0
cycler 0.11.0
et-xmlfile 1.1.0
fonttools 4.40.0
h5py 3.9.0
humanfriendly 10.0
idna 3.4
joblib 1.0.1
kiwisolver 1.4.4
llvmlite 0.36.0
matplotlib 3.6.1
mygene 3.2.2
patsy 0.5.3
pip 20.0.2
pyfiglet 0.7
pynndescent 0.5.2
pyparsing 3.1.0
python-dateutil 2.8.2
pytz 2023.3
requests 2.31.0
scanpy 1.9.1
scikit-learn 0.24.2
scipy 1.9.2
seaborn 0.12.0
session-info 1.0.0
setuptools 45.2.0
six 1.16.0
statsmodels 0.14.0
stdlib-list 0.9.0
threadpoolctl 2.1.0
tqdm 4.65.0
umap-learn 0.5.1
urllib3 2.0.3
wheel 0.34.2

bash 5.0.17