Package: RGMQL
Type: Package
Title: GenoMetric Query Language for R/Bioconductor
Version: 1.4.1
Author: Simone Pallotta, Marco Masseroli
Maintainer: Simone Pallotta <simonepallotta@hotmail.com>
Description: This package brings the GenoMetric Query Language (GMQL)
    functionalities into the R environment. GMQL is a high-level, declarative
    language to manage heterogeneous genomic datasets for biomedical purposes, 
	using simple queries to process genomic regions and their metadata and properties.
	GMQL adopts algorithms efficiently designed for big data using cloud-computing 
    technologies (like Apache Hadoop and Spark) allowing GMQL to run on modern
	infrastructures, in order to achieve scalability and high performance.
	It allows to create, manipulate and extract genomic data from different 
	data sources both locally and remotely. Our RGMQL functions allow complex 
	queries and processing leveraging on the R idiomatic paradigm. 
	The RGMQL package also provides a rich set of ancillary classes that allow
	sophisticated input/output management and sorting, such as:
	ASC, DESC, BAG, MIN, MAX, SUM, AVG, MEDIAN, STD, Q1, Q2, Q3 (and many others).
	Note that many RGMQL functions are not directly executed in R environment, 
	but are deferred until real execution is issued.
License: Artistic-2.0
URL: http://www.bioinformatics.deib.polimi.it/genomic_computing/GMQL/
Encoding: UTF-8
LazyData: true
RoxygenNote: 6.1.1
Imports:
    httr,
    rJava,
    GenomicRanges,
    rtracklayer,
    data.table,
    utils,
    plyr,
    xml2,
    methods,
    S4Vectors,
    dplyr,
    stats,
    glue,
    BiocGenerics
Depends:
    R(>= 3.4.2), RGMQLlib
VignetteBuilder: knitr
Suggests: 
    BiocStyle,
    knitr,
    rmarkdown
biocViews:
    Software,
    Infrastructure,
    DataImport,
    Network,
    ImmunoOncology,
    SingleCell
Collate: 
    'AllClasses.R'
    'AllGenerics.R'
    'GMQLtoGRanges.R'
    'GRangesToGMQL.R'
    'S3Aggregates.R'
    'S3Cover-Param.R'
    'S3Distal.R'
    'S3Operator.R'
    'Utils.R'
    'evaluation-functions.R'
    'filter-extract-function.R'
    'gmql_cover.R'
    'gmql_difference.R'
    'gmql_extend.R'
    'gmql_group.R'
    'gmql_init.R'
    'gmql_join.R'
    'gmql_map.R'
    'gmql_materialize.R'
    'gmql_merge.R'
    'gmql_order.R'
    'gmql_project.R'
    'gmql_read.R'
    'gmql_select.R'
    'gmql_union.R'
    'onLoad.R'
    'ordering-functions.R'
    'web-services.R'