DESCRIPTION

Package: metagMisc
Title: Miscellaneous functions for metagenomic analysis
Version: 0.5.0
Authors@R: person("Vladimir", "Mikryukov", email = "vmikryukov@gmail.com", role = c("aut", "cre"))
Description: metagMisc package contains miscellaneous functions for metagenomic analysis, including data transformations, several parsers (for USERCH UC-format; BLAST, SINA and STAMPA outputs, etc.), taxonomy handlers (SILVA, QIIME, AMPTk), phyloseq-shortcuts (multiple rarefaction, phyloseq splitting and exporting), and DADA2-shortcuts (error rate estimation on the subset of data, export of denoised amplicons in fasta).
Depends: R (>= 4.1.0)
Imports:
    data.table (>= 1.14.6),
    plyr (>= 1.8.0),
    vegan (>= 2.4-0)
Suggests:
    reshape2 (>= 1.4.2),
    ggplot2 (>= 2.2.0),
    phyloseq (>= 1.19.0),
    breakaway (>= 4.3),
    compositions (>= 1.40-1),
    dada2 (>= 1.3.3),
    DESeq2 (>= 1.14.0),
    entropart (>= 1.4-8),
    geiger (>= 2.0.6),
    iNEXT (>= 2.0.14),
    Matrix (>= 1.5-0),
    metagenomeSeq (>= 1.16.0),
    openssl (>= 0.9.6),
    picante (>= 1.6-2),
    PhyloMeasures (>= 2.1),
    smacof (>= 1.9-6),
    XML (>= 3.98),
    zCompositions (>= 1.1.1)
License: MIT
Encoding: UTF-8
LazyData: true
ByteCompile: true
RoxygenNote: 7.2.3