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hoonbiolab/hmftools_snv : v3.2.2

Latest release: almost 2 years ago - 11 downloads - 271 dependencies

JSON

Dependencies

@PKGNAME@ @PKGVERSION@
@PKGNAME@ @VERSION@
AnnotationDbi 1.60.0
BH 1.78.0-0
BSgenome 1.66.2
Biobase 2.58.0
BiocFileCache 2.6.0
BiocGenerics 0.44.0
BiocIO 1.8.0
BiocManager 1.30.19
BiocParallel 1.32.5
BiocVersion 3.16.0
Biostrings 2.66.0
DBI 1.1.3
DelayedArray 0.24.0
GenomeInfoDb 1.34.6
GenomeInfoDbData 1.2.9
GenomicAlignments 1.34.0
GenomicFeatures 1.50.3
GenomicRanges 1.50.2
IRanges 2.32.0
KEGGREST 1.38.0
KernSmooth 2.23-20
MASS 7.3-58.1
Matrix 1.5-3
MatrixGenerics 1.10.0
R.cache 0.16.0
R.methodsS3 1.8.2
R.oo 1.25.0
R.utils 2.12.2
R6 2.5.1
RColorBrewer 1.1-3
RCurl 1.98-1.9
RSQLite 2.2.20
Rcpp 1.0.9
Rhtslib 2.0.0
Rsamtools 2.14.0
S4Vectors 0.36.1
StructuralVariantAnnotation 1.13.0
SummarizedExperiment 1.28.0
TxDb.Hsapiens.UCSC.hg19.knownGene 3.2.2
TxDb.Hsapiens.UCSC.hg38.knownGene 3.16.0
VariantAnnotation 1.44.0
XML 3.99-0.13
XVector 0.38.0
argparser 0.7.1
askpass 1.1
assertthat 0.2.1
backports 1.4.1
base64enc 0.1-3
base 4.2.2
biomaRt 2.54.0
bit64 4.0.5
bit 4.0.5
bitops 1.0-7
blob 1.2.3
boot 1.3-28.1
brio 1.1.3
broom 1.0.2
bslib 0.4.2
cachem 1.0.6
callr 3.7.3
cellranger 1.1.0
class 7.3-20
cli 3.6.0
clipr 0.8.0
cluster 2.1.4
codetools 0.2-18
colorspace 2.0-3
compiler 4.2.2
copynumber 1.38.0
cpp11 0.4.3
crayon 1.5.2
curl 5.0.0
data.table 1.14.6
datasets 4.2.2
dbplyr 2.3.0
desc 1.4.2
diffobj 0.3.5
digest 0.6.31
dplyr 1.0.10
dtplyr 1.2.2
ellipsis 0.3.2
evaluate 0.20
fansi 1.0.3
farver 2.1.1
fastmap 1.1.0
filelock 1.0.2
forcats 0.5.2
foreign 0.8-84
formatR 1.14
fs 1.5.2
futile.logger 1.4.3
futile.options 1.0.1
gargle 1.2.1
generics 0.1.3
getopt 1.20.3
ggplot2 3.4.0
glue 1.6.2
googledrive 2.0.0
googlesheets4 1.0.1
grDevices 4.2.2
graphics 4.2.2
grid 4.2.2
gtable 0.3.1
haven 2.5.1
highr 0.10
hms 1.1.2
htmltools 0.5.4
httr 1.4.4
ids 1.0.1
isoband 0.2.7
jquerylib 0.1.4
jsonlite 1.8.4
knitr 1.41
labeling 0.4.2
lambda.r 1.2.4
lattice 0.20-45
lifecycle 1.0.3
lubridate 1.9.0
magrittr 2.0.3
matrixStats 0.63.0
memoise 2.0.1
methods 4.2.2
mgcv 1.8-41
mime 0.12
modelr 0.1.10
munsell 0.5.0
nlme 3.1-161
nnet 7.3-18
openssl 2.0.5
optparse 1.7.3
org.Hs.eg.db 3.16.0
org.testing.db 0.1
parallel 4.2.2
pillar 1.8.1
pkgconfig 2.0.3
pkgload 1.3.2
plogr 0.2.0
plyr 1.8.8
png 0.1-8
praise 1.0.0
prettyunits 1.1.1
processx 3.8.0
progress 1.2.2
ps 1.7.2
purrr 1.0.1
randomForest 4.7-1.1
rappdirs 0.3.3
readr 2.1.3
readxl 1.4.1
rematch2 2.1.2
rematch 1.0.1
reprex 2.0.2
restfulr 0.0.15
rjson 0.2.21
rlang 1.0.6
rmarkdown 2.19
rpart 4.1.19
rprojroot 2.0.3
rstudioapi 0.14
rtracklayer 1.58.0
rvest 1.0.3
sass 0.4.4
scales 1.2.1
selectr 0.4-2
snow 0.4-4
spatial 7.3-15
splines 4.2.2
stats4 4.2.2
stats 4.2.2
stringdist 0.9.10
stringi 1.7.12
stringr 1.5.0
survival 3.5-0
sys 3.4.1
tcltk 4.2.2
testRcppAttributePackage 1.0
testRcppClass 0.1
testRcppInterfaceExporter 0.1.0
testRcppInterfaceUser 0.1.0
testRcppModule 0.1
testRcppPackage 0.1.0
testthat 3.1.6
tibble 3.1.8
tidyr 1.2.1
tidyselect 1.2.0
tidyverse 1.3.2
timechange 0.2.0
tinytex 0.43
tools 4.2.2
translations 4.2.2
tzdb 0.3.0
utf8 1.2.2
utils 4.2.2
uuid 1.1-0
vctrs 0.5.1
viridisLite 0.4.1
vroom 1.6.0
waldo 0.4.0
withr 2.5.0
xfun 0.36
xml2 1.3.3
yaml 2.3.6
zlibbioc 1.44.0

bash 5.0.17
python 3.8.10

com.fasterxml.jackson.core:jackson-annotations 2.11.1
com.fasterxml.jackson.core:jackson-core 2.11.1
com.fasterxml.jackson.core:jackson-databind 2.11.1
com.fasterxml.jackson.dataformat:jackson-dataformat-xml 2.11.1
com.fasterxml.jackson.module:jackson-module-jaxb-annotations 2.11.1
com.fasterxml.woodstox:woodstox-core 6.2.1
com.google.code.findbugs:jsr305 3.0.2
com.google.code.gson:gson 2.8.9
com.google.errorprone:error_prone_annotations 2.7.1
com.google.guava:failureaccess 1.0.1
com.google.guava:guava 31.0.1-jre
com.google.guava:listenablefuture 9999.0-empty-to-avoid-conflict-with-guava
com.google.j2objc:j2objc-annotations 1.3
com.google.protobuf:protobuf-java 3.6.1
com.hartwig.serve:datamodel 1.12
com.hartwig:hmf-common local-SNAPSHOT
com.hartwig:patient-db 3.71.1
com.hartwig:pave 1.4.1
com.hartwig:sage 3.2.2
com.sun.xml.bind.jaxb:isorelax 20090621
commons-cli:commons-cli 1.3.1
commons-logging:commons-logging 1.1.1
io.r2dbc:r2dbc-spi 0.9.0.M1
jakarta.activation:jakarta.activation-api 1.2.1
jakarta.xml.bind:jakarta.xml.bind-api 2.3.2
javax.activation:javax.activation-api 1.2.0
javax.xml.bind:jaxb-api 2.3.1
jrt-fs:jrt-fs 11.0.17
net.java.dev.msv:xsdlib 2013.6.1
org.apache.commons:commons-compress 1.19
org.apache.commons:commons-csv 1.9.0
org.apache.commons:commons-dbcp2 2.1.1
org.apache.commons:commons-jexl 2.1.1
org.apache.commons:commons-lang3 3.6
org.apache.commons:commons-math3 3.6
org.apache.commons:commons-pool2 2.4.2
org.apache.logging.log4j:log4j-api 2.17.1
org.apache.logging.log4j:log4j-core 2.17.1
org.codehaus.woodstox:stax2-api 4.2.1
org.debian.security.UpdateCertificates:ca-certificates-java *
org.jooq:jooq 3.15.5

bootstrap-accessibility-plugin 1.0.6
bootstrap-colorpicker 3.4.0
bootstrap-sass 3.4.1
bootstrap 4.6.0
bootstrap 5.2.2
bootswatch 3.4.1
bootswatch 4.6.0
bootswatch 5.2.2

PyGObject 3.36.0
certifi 2019.11.28
chardet 3.0.4
dbus-python 1.2.16
distro-info 0.23ubuntu1
h5py 2.10.0
idna 2.8
mpi4py 3.0.3
numpy 1.17.4
python-apt 2.0.1
requests-unixsocket 0.2.0
requests 2.22.0
six 1.14.0
unattended-upgrades 0.1
urllib3 1.25.8