nfcore/circrna : dev

Workflow for analysis and miRNA target prediction analysis of circRNAs in RNA-Seq data.

Latest release: over 3 years ago - 1,345 downloads - 654 dependencies

Dependencies

@PKGNAME@ @VERSION@
AnnotationDbi 1.48.0
BH 1.75.0-0
Biobase 2.46.0
BiocFileCache 1.10.0
BiocGenerics 0.32.0
BiocParallel 1.20.0
BiocSingular 1.2.0
Biostrings 2.54.0
ComplexHeatmap 2.2.0
DBI 1.1.1
DESeq2 1.26.0
DelayedArray 0.12.0
DelayedMatrixStats 1.8.0
EnhancedVolcano 1.4.0
Formula 1.2-4
GenomeInfoDb 1.22.0
GenomeInfoDbData 1.2.2
GenomicAlignments 1.22.0
GenomicRanges 1.38.0
GetoptLong 1.0.5
GlobalOptions 0.1.2
HDF5Array 1.14.0
Hmisc 4.4-1
IHW 1.14.0
IRanges 2.20.0
KernSmooth 2.23-18
MASS 7.3-54
Matrix 1.3-3
MatrixModels 0.5-0
PCAtools 1.2.0
R.methodsS3 1.8.1
R.oo 1.24.0
R.utils 2.10.1
R6 2.5.0
RColorBrewer 1.1-2
RCurl 1.98-1.2
RSQLite 2.2.5
Rcpp 1.0.6
RcppArmadillo 0.10.4.0.0
RcppEigen 0.3.3.9.1
RcppNumerical 0.4-0
Rhdf5lib 1.8.0
Rhtslib 1.18.0
Rsamtools 2.2.0
S4Vectors 0.24.0
SingleCellExperiment 1.8.0
SparseM 1.78
SummarizedExperiment 1.16.0
XML 3.99-0.3
XVector 0.26.0
abind 1.4-5
acepack 1.4.1
acidbase 0.1.9
annotate 1.64.0
apeglm 1.8.0
argparser 0.6
askpass 1.1
assertthat 0.2.1
backports 1.2.1
base64enc 0.1-3
base 3.6.3
bbmle 1.0.23.1
bdsmatrix 1.3-4
beachmat 2.2.0
beachtest 1.0.0
biomaRt 2.42.0
bioverbs 0.2.13
bit64 4.0.5
bit 4.0.4
bitops 1.0-7
blob 1.2.1
boot 1.3-28
brio 0.3.17
broom 0.7.6
caTools 1.18.2
cachem 1.0.5
callr 3.7.0
car 3.0-10
carData 3.0-4
cellranger 1.1.0
checkmate 2.0.0
circlize 0.4.12
cli 2.5.0
clipr 0.7.1
clue 0.3-59
cluster 2.1.0
coda 0.19-4
colorspace 2.0-1
compiler 3.6.3
conquer 1.0.2
corrplot 0.88
cowplot 1.1.1
cpp11 0.2.7
crayon 1.4.1
curl 4.3.1
data.table 1.14.0
datasets 3.6.3
dbplyr 2.1.1
desc 1.3.0
diffobj 0.3.4
digest 0.6.27
dplyr 1.0.5
dqrng 0.3.0
ellipsis 0.3.2
emdbook 1.3.12
evaluate 0.14
fansi 0.4.2
farver 2.1.0
fastmap 1.1.0
fdrtool 1.2.16
forcats 0.5.1
foreign 0.8-76
formatR 1.9
futile.logger 1.4.3
futile.options 1.0.1
gdata 2.18.0
genefilter 1.68.0
geneplotter 1.64.0
generics 0.1.0
ggplot2 3.3.3
ggpubr 0.4.0
ggrepel 0.9.1
ggsci 2.9
ggsignif 0.6.1
glue 1.4.2
goalie 0.4.4
gplots 3.1.1
grDevices 3.6.3
graphics 3.6.3
grid 3.6.3
gridExtra 2.3
gtable 0.3.0
gtools 3.8.2
haven 2.4.1
highr 0.9
hms 1.1.0
htmlTable 2.2.1
htmltools 0.5.1.1
htmlwidgets 1.5.3
httr 1.4.2
irlba 2.3.3
isoband 0.2.4
jpeg 0.1-8.1
jsonlite 1.7.2
knitr 1.33
labeling 0.4.2
lambda.r 1.2.4
lattice 0.20-44
latticeExtra 0.6-29
lifecycle 1.0.0
lme4 1.1-27
locfit 1.5-9.4
lpsymphony 1.14.0
magrittr 2.0.1
maptools 1.1-1
markdown 1.1
matrixStats 0.58.0
memoise 2.0.0
methods 3.6.3
mgcv 1.8-35
mime 0.10
minqa 1.2.4
morebeach 1.0.0
munsell 0.5.0
mvtnorm 1.1-1
mvtnormAPI 1.0-0
nlme 3.1-150
nloptr 1.2.2.2
nnet 7.3-16
numDeriv 2016.8-1.1
openssl 1.4.4
openxlsx 4.2.3
org.Hs.eg.db 3.10.0
org.testing.db 0.1
parallel 3.6.3
pbkrtest 0.5.1
pheatmap 1.0.12
pillar 1.6.1
pkgconfig 2.0.3
pkgload 1.2.1
plogr 0.2.0
plyr 1.8.6
png 0.1-7
polynom 1.4-0
praise 1.0.0
prettyunits 1.1.1
processx 3.5.2
progress 1.2.2
ps 1.6.0
purrr 0.3.4
pvclust 2.2-0
quantreg 5.75
rappdirs 0.3.3
readr 1.4.0
readxl 1.3.1
rematch2 2.1.2
rematch 1.0.1
reshape2 1.4.4
rhdf5 2.30.0
rio 0.5.26
rjson 0.2.20
rlang 0.4.11
rpart 4.1-15
rprojroot 2.0.2
rstatix 0.7.0
rstudioapi 0.13
rsvd 1.0.3
rtracklayer 1.46.0
scales 1.1.1
shape 1.4.6
sitmo 2.0.1
slam 0.1-48
snow 0.4-3
sp 1.4-5
splines 3.6.3
statmod 1.4.35
stats4 3.6.3
stats 3.6.3
stringi 1.5.3
stringr 1.4.0
survival 3.2-11
sys 3.4
tcltk 3.6.3
testRcppClass 0.1
testRcppInterfaceExporter 0.1.0
testRcppInterfaceUser 0.1.0
testRcppModule 0.1
testRcppPackage 0.1.0
testthat 3.0.2
tibble 3.1.2
tidyr 1.1.3
tidyselect 1.1.1
tools 3.6.3
transformer 0.2.12
translations 3.6.3
tximport 1.14.0
utf8 1.2.1
utils 3.6.3
vctrs 0.3.8
viridis 0.6.1
viridisLite 0.4.0
waldo 0.2.5
withr 2.4.2
xfun 0.23
xtable 1.8-4
yaml 2.2.1
zip 2.1.1
zlibbioc 1.32.0

java 11.0.8-internal 0-adhoc..src
python 2.7.15
python 3.8.5

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nfcore/circrna : dev

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