CRAN . RSTUDIO . COM {
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Title:
CRAN: Package jackalope
Description:
Simply and efficiently simulates (i) variants from reference genomes and (ii) reads from both Illumina <<a href="https://www.illumina.com/" target="_top">https://www.illumina.com/</a>> and Pacific Biosciences (PacBio) <<a href="https://www.pacb.com/" target="_top">https://www.pacb.com/</a>> 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.
Website Age:
27 years and 1 months (reg. 1998-05-15).
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Keywords {🔍}
jackalope, sequencing, jackalopetgz, reference, reads, illumina, pacbio, jackalopezip, rrelease, roldrel, variants, genomes, files, simulate, include, based, file, rcpp, zlibbioc, lucas, nell, license, citation, binaries, arm, swift, versatile, phylogenomic, highthroughput, simulator, simply, efficiently, simulates, httpswwwilluminacom, pacific, biosciences, httpswwwpacbcom, platforms, read, fasta, genomic, simulated, summary, statistics, phylogenies, variant, call, format, vcf, coalescent,
Topics {✒️}
optical/polymerase chain reaction readme news cran checks /lucasnell/jackalope/issues license mate-pair illumina reads standard file formats gnu make citation simulating illumina sequencing variant call format gz windows binaries /lucasnell/jackalope needscompilation pacbio sequencing simulation jackalope results documentation jackalope archive linking read reference genomes zip macos binaries canonical form https org/package=jackalope coalescent simulations include selection reference genomes jackalope author jackalope models pacbio reads reference manual versatile phylogenomic efficiently simulates pacific biosciences summary statistics demographic fluctuations paired-end mapping qualities zlibbioc linkingto zlibbioc suggests testthat published nell [cph cre] maintainer pdf vignettes package source r-devel r-release r-oldrel r-project fasta files genomic variants simulate single illumina jackalope 'jackalope' reads pacbio
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