Package: specL Type: Package Title: specL - Prepare Peptide Spectrum Matches for Use in Targeted Proteomics Version: 1.46.0 Authors@R: c(person("Christian", "Panse", email = "cp@fgcz.ethz.ch", role = c("aut", "cre"), comment = c(ORCID = "0000-0003-1975-3064")), person("Jonas", "Grossmann", email = "jg@fgcz.ethz.ch", role = "aut", comment = c(ORCID = "0000-0002-6899-9020")), person("Christian", "Trachsel", role = "aut"), person("Witold E.", "Wolski", email = "wew@fgcz.ethz.ch", role = "ctb")) Depends: R (>= 4.1), DBI (>= 0.5), methods (>= 3.3), protViz (>= 0.7), RSQLite (>= 1.1), seqinr (>= 3.3) Suggests: BiocGenerics, BiocStyle (>= 2.2), knitr (>= 1.15), rmarkdown, RUnit (>= 0.4) Description: provides a functions for generating spectra libraries that can be used for MRM SRM MS workflows in proteomics. The package provides a BiblioSpec reader, a function which can add the protein information using a FASTA formatted amino acid file, and an export method for using the created library in the Spectronaut software. The package is developed, tested and used at the Functional Genomics Center Zurich . License: GPL-3 URL: http://bioconductor.org/packages/specL/ Collate: read.bibliospec.R genSwathIonLib.R annotate.protein_id.R AllGenerics.R specL.R specLSet.R cdsw.R zzz.R biocViews: MassSpectrometry, Proteomics LazyData: true BugReports: https://github.com/fgcz/specL/issues VignetteBuilder: knitr Config/pak/sysreqs: zlib1g-dev Repository: Bioconductor 3.23 Date/Publication: 2026-04-28 12:40:12 UTC RemoteUrl: https://github.com/bioc/specL RemoteRef: RELEASE_3_23 RemoteSha: 4a57dea043e2e60cc7cd04cbdf9a05fbb5dce8bc NeedsCompilation: no Packaged: 2026-07-03 14:10:02 UTC; root Author: Christian Panse [aut, cre] (ORCID: ), Jonas Grossmann [aut] (ORCID: ), Christian Trachsel [aut], Witold E. Wolski [ctb] Maintainer: Christian Panse