xmlconvert, jsonlite, anytime, cffr, rbibutils, install.load
Currently, this data set only includes information from six reference
sources. Refer to the CITATION.cff file for the complete citations of
the reference sources. For information about vaccination$/immunization$

Description: An R interface to browse, access, and fetch data
Imports: ckanr, dplyr, glue, httr, magrittr, purrr, rappdirs, rlang,
Packaged: 2019-11-09 10:42:02 UTC; aswansyahputra
Author: Muhammad Aswan Syahputra [aut, cre]
Maintainer: Muhammad Aswan Syahputra <muhammadaswansyahputra@gmail.com>

Description: Interface to browse, list, and fetch data
Imports: ckanr, dplyr, glue, httr, magrittr, pillar, purrr, rappdirs,
rlang, stringr, tibble, tidyr, tools, utils
Packaged: 2019-12-15 12:08:08 UTC; aswansyahputra

Description: Interface to browse, list, and fetch data about West Java.
Packaged: 2020-01-13 04:40:25 UTC; aswansyahputra

Title: Test Similarity Between Binary Data using Jaccard/Tanimoto
Author: Neo Christopher Chung <nchchung@gmail.com>, Błażej Miasojedow
<bmiasojedow@gmail.com>, Michał Startek <M.Startek@mimuw.edu.pl>, Anna Gambin <aniag@mimuw.edu.pl>
Maintainer: Neo Christopher Chung <nchchung@gmail.com>
Description: Calculate statistical significance of Jaccard/Tanimoto similarity
Imports: Rcpp (>= 0.12.6), qvalue, dplyr, magrittr

Title: Jack, Zonal, and Schur Polynomials
Description: Symbolic calculation and evaluation of the Jack polynomials, zonal polynomials, and Schur polynomials. Mainly based on Demmel & Koev's paper (2006) <doi:10.1090/S0025-5718-05-01780-1>. Zonal polynomials and Schur polynomials are particular cases of Jack polynomials. Zonal polynomials appear in random matrix theory. Schur polynomials appear in the field of combinatorics.
Imports: partitions, DescTools, gmp, mvp, multicool

Imports: partitions, DescTools, gmp, mvp, multicool, JuliaConnectoR,

Package: jackalope
Type: Package
Title: A Swift, Versatile Phylogenomic and High-Throughput Sequencing
Simulator
Version: 0.1.0
Authors@R: person(c("Lucas", "A."), "Nell", email = "lucas@lucasnell.com",
role = c("cph", "aut", "cre"),
comment = c(ORCID = "0000-0003-3209-0517"))
Description: Simply and efficiently
simulates (i) variants from reference genomes and (ii) reads from both Illumina
<https://www.illumina.com/>
and Pacific Biosciences (PacBio) <https://www.pacb.com/> platforms.
It can either read reference genomes from FASTA files or simulate new ones.
Genomic variants can be simulated using summary statistics, phylogenies,
Variant Call Format (VCF) files, and coalescent simulations—the latter of which
can include selection, recombination, and demographic fluctuations.
'jackalope' can simulate single, paired-end, or mate-pair Illumina reads,
as well as PacBio reads.
These simulations include sequencing errors, mapping qualities, multiplexing,
and optical/polymerase chain reaction (PCR) duplicates.
Simulating Illumina sequencing is based on ART
by Huang et al. (2012) <doi:10.1093/bioinformatics/btr708>.
PacBio sequencing simulation is based on
SimLoRD  by Stöcker et al. (2016) <doi:10.1093/bioinformatics/btw286>.
All outputs can be written to standard file formats.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Depends: R (>= 2.10)
biocViews:
Imports: ape, R6, Rcpp (>= 0.12.11), RcppProgress (>= 0.1), zlibbioc
LinkingTo: Rcpp, RcppArmadillo, RcppProgress, Rhtslib, zlibbioc
SystemRequirements: C++11
RoxygenNote: 6.1.1
Suggests: coala, knitr, scrm, testthat, vcfR
VignetteBuilder: knitr
URL: https://github.com/lucasnell/jackalope
BugReports: https://github.com/lucasnell/jackalope/issues
NeedsCompilation: yes
Packaged: 2019-06-04 09:23:11 UTC; lucasnell
Author: Lucas A. Nell [cph, aut, cre] (<https://orcid.org/0000-0003-3209-0517>)
Maintainer: Lucas A. Nell <lucas@lucasnell.com>
Repository: CRAN
Date/Publication: 2019-06-04 14:50:04 UTC