Ecosyste.ms: Docker

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yinxiu/variantalker : v1.0

NextFlow pipeline to functionally annotate DNA variants in VCF files

Debian GNU/Linux bookworm/sid

Latest release: over 1 year ago - 119 downloads - 1,068 dependencies

Dependencies

@PKGNAME@ @PKGVERSION@
@PKGNAME@ @VERSION@
BH 1.81.0-1
BSgenome.Hsapiens.UCSC.hg19 1.4.3
BSgenome.Hsapiens.UCSC.hg38 1.4.5
BSgenome 1.66.3
Biobase 2.58.0
BiocGenerics 0.44.0
BiocIO 1.8.0
BiocManager 1.30.20
BiocParallel 1.32.6
BiocVersion 3.16.0
Biostrings 2.66.0
DBI 1.1.3
DelayedArray 0.24.0
GenomeInfoDb 1.34.9
GenomeInfoDbData 1.2.9
GenomicAlignments 1.34.1
GenomicRanges 1.50.2
IRanges 2.32.0
KernSmooth 2.23-20
MASS 7.3-58.2
Matrix 1.5-3
MatrixGenerics 1.10.0
R6 2.5.1
RColorBrewer 1.1-3
RCurl 1.98-1.12
Rcpp 1.0.10
Rhtslib 2.0.0
Rsamtools 2.14.0
S4Vectors 0.36.2
SummarizedExperiment 1.28.0
XML 3.99-0.14
XVector 0.38.0
askpass 1.1
backports 1.4.1
base64enc 0.1-3
base 4.2.3
bit64 4.0.5
bit 4.0.5
bitops 1.0-7
blob 1.2.4
boot 1.3-28.1
broom 1.0.4
bslib 0.4.2
cachem 1.0.7
callr 3.7.3
cellranger 1.1.0
class 7.3-21
cli 3.6.1
clipr 0.8.0
cluster 2.1.4
codetools 0.2-19
colorspace 2.1-0
compiler 4.2.3
conflicted 1.2.0
cpp11 0.4.3
crayon 1.5.2
curl 5.0.0
data.table 1.14.8
datasets 4.2.3
dbplyr 2.3.2
deconstructSigs 1.8.0
digest 0.6.31
doParallel 1.0.17
docopt 0.7.1
dplyr 1.1.1
dtplyr 1.3.1
ellipsis 0.3.2
evaluate 0.20
fansi 1.0.4
farver 2.1.1
fastmap 1.1.1
fontawesome 0.5.0
forcats 1.0.0
foreach 1.5.2
foreign 0.8-84
formatR 1.14
fs 1.6.1
futile.logger 1.4.3
futile.options 1.0.1
gargle 1.3.0
generics 0.1.3
getopt 1.20.3
ggplot2 3.4.2
glue 1.6.2
googledrive 2.1.0
googlesheets4 1.1.0
grDevices 4.2.3
graphics 4.2.3
grid 4.2.3
gtable 0.3.3
haven 2.5.2
highr 0.10
hms 1.1.3
htmltools 0.5.5
httr 1.4.5
ids 1.0.1
isoband 0.2.7
iterators 1.0.14
jquerylib 0.1.4
jsonlite 1.8.4
knitr 1.42
labeling 0.4.2
lambda.r 1.2.4
lattice 0.20-45
lifecycle 1.0.3
littler 0.3.17
lubridate 1.9.2
magrittr 2.0.3
matrixStats 0.63.0
memoise 2.0.1
methods 4.2.3
mgcv 1.8-41
mime 0.12
modelr 0.1.11
munsell 0.5.0
mutSignatures 2.1.1
nlme 3.1-162
nnet 7.3-18
openssl 2.0.6
parallel 4.2.3
pillar 1.9.0
pkgconfig 2.0.3
plyr 1.8.8
pracma 2.4.2
prettyunits 1.1.1
processx 3.8.0
progress 1.2.2
proxy 0.4-27
ps 1.7.4
purrr 1.0.1
ragg 1.2.5
rappdirs 0.3.3
readr 2.1.4
readxl 1.4.2
rematch2 2.1.2
rematch 1.0.1
reprex 2.0.2
reshape2 1.4.4
restfulr 0.0.15
rjson 0.2.21
rlang 1.1.0
rmarkdown 2.21
rpart 4.1.19
rstudioapi 0.14
rtracklayer 1.58.0
rvest 1.0.3
sass 0.4.5
scales 1.2.1
selectr 0.4-2
snow 0.4-4
spatial 7.3-16
splines 4.2.3
stats4 4.2.3
stats 4.2.3
stringi 1.7.12
stringr 1.5.0
survival 3.5-3
sys 3.4.1
systemfonts 1.0.4
tcltk 4.2.3
testRcppAttributePackage 1.0
testRcppClass 0.1
testRcppInterfaceExporter 0.1.0
testRcppInterfaceUser 0.1.0
testRcppModule 0.1
testRcppPackage 0.1.0
textshaping 0.3.6
tibble 3.2.1
tidyr 1.3.0
tidyselect 1.2.0
tidyverse 2.0.0
timechange 0.2.0
tinytex 0.44
tools 4.2.3
translations 4.2.3
tzdb 0.3.0
utf8 1.2.3
utils 4.2.3
uuid 1.1-0
vctrs 0.6.1
viridisLite 0.4.1
vroom 1.6.1
withr 2.5.0
xfun 0.38
xml2 1.3.3
yaml 2.3.7
zlibbioc 1.44.0

java 11.0.13 7-b1751.21
python 3.11.2
python 3.9.15

pyparsing 3.0.9
CNVkit 0.9.10
Cython 0.29.34
Pillow 9.5.0
PySocks 1.7.1
PyVCF 0.6.8
PyYAML 6.0
aiohttp 3.8.4
aiosignal 1.3.1
argcomplete 3.0.5
argparse 1.2.1
async-timeout 4.0.2
attrs 22.2.0
beautifulsoup4 4.12.0
biopython 1.81
boltons 23.0.0
boto 2.49.0
brotlipy 0.7.0
bs4 0.0.1
cachetools 5.3.0
certifi 2022.12.7
cffi 1.15.1
chardet 5.1.0
charset-normalizer 2.0.4
click 8.1.3
conda-content-trust 0.1.3
conda-package-handling 1.9.0
conda 23.3.1
contourpy 1.0.7
crcmod 1.7
cryptography 38.0.1
cycler 0.11.0
fasteners 0.18
fonttools 4.39.3
frozenlist 1.3.3
gcs-oauth2-boto-plugin 3.0
google-apitools 0.5.32
google-auth 2.17.1
google-reauth 0.1.1
gsutil 5.21
h5py 3.8.0
httplib2 0.20.4
idna 3.4
importlib-resources 5.12.0
joblib 1.2.0
jsonpatch 1.32
jsonpointer 2.0
kiwisolver 1.4.4
llvmlite 0.39.1
lxml 4.9.2
matplotlib 3.7.1
mkl-fft 1.3.1
mkl-random 1.2.2
mkl-service 2.4.0
monotonic 1.6
multidict 6.0.4
natsort 8.3.1
ncls 0.0.66
networkx 3.0
numba 0.56.4
numpy 1.23.5
oauth2client 4.1.3
packaging 23.0
pandas 2.0.0
pip 22.3.1
pluggy 1.0.0
pomegranate 0.14.8
pyOpenSSL 22.0.0
pyasn1-modules 0.2.8
pyasn1 0.4.8
pyclone-vi 0.1.1
pycosat 0.6.4
pycparser 2.21
pyfaidx 0.7.2.1
pyranges 0.0.120
pyrle 0.0.35
pysam 0.20.0
python-apt 2.5.3
python-dateutil 2.8.2
python-debian 0.1.49
pytz 2023.3
pyu2f 0.1.5
reportlab 3.6.12
requests 2.28.1
retry-decorator 1.1.1
rsa 3.1.4
rsa 4.7.2
ruamel.yaml.clib 0.2.6
ruamel.yaml 0.17.21
scikit-learn 1.2.2
scipy 1.10.1
setuptools 65.5.0
simplejson 3.5.2
simplejson 3.6.5
six 1.16.0
sorted-nearest 0.0.38
soupsieve 2.4
tabulate 0.9.0
threadpoolctl 3.1.0
toolz 0.12.0
tqdm 4.64.1
tzdata 2023.3
urllib3 1.26.13
wheel 0.37.1
yarl 1.8.2
zipp 3.15.0