Showing 6 of total 6 results (show query)
bioc
SeqArray:Data management of large-scale whole-genome sequence variant calls using GDS files
Data management of large-scale whole-genome sequencing variant calls with thousands of individuals: genotypic data (e.g., SNVs, indels and structural variation calls) and annotations in SeqArray GDS files are stored in an array-oriented and compressed manner, with efficient data access using the R programming language.
Maintained by Xiuwen Zheng. Last updated 7 days ago.
infrastructuredatarepresentationsequencinggeneticsbioinformaticsgds-formatsnpsnvweswgscpp
45 stars 12.11 score 1.1k scripts 9 dependentsbioc
VariantAnnotation:Annotation of Genetic Variants
Annotate variants, compute amino acid coding changes, predict coding outcomes.
Maintained by Bioconductor Package Maintainer. Last updated 3 months ago.
dataimportsequencingsnpannotationgeneticsvariantannotationcurlbzip2xz-utilszlib
11.39 score 1.9k scripts 152 dependents
vegawidget
altair:Interface to 'Altair'
Interface to 'Altair' <https://altair-viz.github.io>, which itself is a 'Python' interface to 'Vega-Lite' <https://vega.github.io/vega-lite/>. This package uses the 'Reticulate' framework <https://rstudio.github.io/reticulate/> to manage the interface between R and 'Python'.
Maintained by Ian Lyttle. Last updated 1 years ago.
altairinteractivereticulatevega-litevisualization
91 stars 6.94 score 23 scripts 1 dependentsbioc
TVTB:TVTB: The VCF Tool Box
The package provides S4 classes and methods to filter, summarise and visualise genetic variation data stored in VCF files. In particular, the package extends the FilterRules class (S4Vectors package) to define news classes of filter rules applicable to the various slots of VCF objects. Functionalities are integrated and demonstrated in a Shiny web-application, the Shiny Variant Explorer (tSVE).
Maintained by Kevin Rue-Albrecht. Last updated 5 months ago.
softwaregeneticsgeneticvariabilitygenomicvariationdatarepresentationguidnaseqwholegenomevisualizationmultiplecomparisondataimportvariantannotationsequencingcoveragealignmentsequencematching
2 stars 5.76 score 16 scriptsbioc
AllelicImbalance:Investigates Allele Specific Expression
Provides a framework for allelic specific expression investigation using RNA-seq data.
Maintained by Jesper R Gadin. Last updated 5 months ago.
geneticsinfrastructuresequencing
5.08 score 7 scripts
jsugarelli
switchcase:A Simple and Flexible Switch-Case Construct for the 'R' Language
Provides a switch-case construct for 'R', as it is known from other programming languages. It allows to test multiple, similar conditions in an efficient, easy-to-read manner, so nested if-else constructs can be avoided. The switch-case construct is designed as an 'R' function that allows to return values depending on which condition is met and lets the programmer flexibly decide whether or not to leave the switch-case construct after a case block has been executed.
Maintained by Joachim Zuckarelli. Last updated 5 years ago.
r-langr-languageswitch-case-construct
3 stars 3.18 score 2 scripts