Package: intansv 1.53.0

Wen Yao

intansv: Integrative analysis of structural variations

This package provides efficient tools to read and integrate structural variations predicted by popular softwares. Annotation and visulation of structural variations are also implemented in the package.

Authors:Wen Yao <[email protected]>

intansv_1.53.0.tar.gz
intansv_1.53.0.zip(r-4.7)intansv_1.53.0.zip(r-4.6)intansv_1.53.0.zip(r-4.5)
intansv_1.53.0.tgz(r-4.6-any)intansv_1.53.0.tgz(r-4.5-any)
intansv_1.53.0.tar.gz(r-4.7-any)intansv_1.53.0.tar.gz(r-4.6-any)
intansv_1.53.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
intansv/json (API)

# Install 'intansv' in R:

install.packages('intansv', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

On BioConductor:intansv-1.53.0(bioc 3.24)intansv-1.52.0(bioc 3.23)

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

genetics annotation sequencing software

4.48 score 2 scripts 3 mentions 11 exports 127 dependencies

Last updated from:171d3b6066. Checks:1 ERROR, 7 NOTE, 2 OK. Indexed: yes.

Target	Result	Time
bioc-checks	ERROR	215
linux-devel-x86_64	NOTE	459
source / vignettes	OK	326
linux-release-x86_64	NOTE	396
macos-release-arm64	NOTE	233
macos-oldrel-arm64	NOTE	238
windows-devel	NOTE	383
windows-release	NOTE	397
windows-oldrel	NOTE	365
wasm-release	OK	201

Exports:methodsMerge plotChromosome plotRegion readBreakDancer readCnvnator readDelly readLumpy readPindel readSoftSearch readSvseq svAnnotation

Dependencies:abind AnnotationDbi AnnotationFilter askpass backports base64enc BH Biobase BiocBaseUtils BiocGenerics BiocIO BiocManager BiocParallel Biostrings biovizBase bit bit64 bitops blob BSgenome bslib cachem checkmate cigarillo cli cluster codetools colorspace cpp11 crayon curl data.table DBI DelayedArray dichromat digest ensembldb evaluate farver fastmap fontawesome foreign formatR Formula fs futile.logger futile.options generics GenomeInfoDb GenomicAlignments GenomicFeatures GenomicRanges ggbio ggplot2 glue graph gridExtra gtable highr Hmisc htmlTable htmltools htmlwidgets httr IRanges isoband jquerylib jsonlite KEGGREST knitr labeling lambda.r lattice lazyeval lifecycle magrittr Matrix MatrixGenerics matrixStats memoise mime nnet openssl OrganismDbi pkgconfig plyr png ProtGenerics R6 rappdirs RBGL RColorBrewer Rcpp RCurl reshape2 restfulr Rhtslib rjson rlang rmarkdown rpart Rsamtools RSQLite rstudioapi rtracklayer S4Arrays S4Vectors S7 sass scales Seqinfo snow SparseArray stringi stringr SummarizedExperiment sys tinytex UCSC.utils VariantAnnotation vctrs viridisLite withr xfun XML XVector yaml

An Introduction to intansv

Introduction | Usage of intansv with example dataset | Session Information

Rendered fromintansvOverview.Rnwusingutils::Sweave

Last update: 2020-04-14
Started: 2017-07-28

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Integrate structural variations predicted by different methods	methodsMerge
Display the chromosome distribution of structural variations	plotChromosome
Display structural variations in a specific genomic region	plotRegion
Read in the structural variations predicted by breakDancer	readBreakDancer
Read in the structural variations predicted by CNVnator	readCnvnator
Read in the structural variations predicted by DELLY	readDelly
Read in the structural variations predicted by Lumpy	readLumpy
Read in the structural variations predicted by Pindel	readPindel
Read in the structural variations predicted by SoftSearch	readSoftSearch
Read in the structural variations predicted by SVseq2	readSvseq
Annotation of structural variations	svAnnotation