BiblioSpec statistics

To access cutting-edge analytics on consensus tools, life science contexts and associated fields, you will need to subscribe to our premium service.


Citations per year

Citations chart

Popular tool citations

chevron_left Database search chevron_right
Popular tools chart

Tool usage distribution map

Tool usage distribution map

Associated diseases

Associated diseases

BiblioSpec specifications


Unique identifier OMICS_19845
Name BiblioSpec
Software type Toolkit/Suite
Interface Command line interface
Restrictions to use Academic or non-commercial use
Input data A library file and an MS2 file containing query spectra.
Operating system Unix/Linux, Windows
Programming languages C++
License BSD 3-clause “New” or “Revised” License
Computer skills Advanced
Version 2.0
Stability Stable
Maintained Yes


  • BlibBuild
  • BlibFilter
  • BlibSearch
  • BlibToMS2
  • LibToSqlite3


Add your version


  • person_outline Michael MacCoss <>

Additional information

The BiblioSpec source code is available as part of the ProteoWizard project on SourceForge (

Publications for BiblioSpec

BiblioSpec in publications

PMCID: 5814520
PMID: 29256016
DOI: 10.1007/s13361-017-1837-2

[…] in chen et al. 2016 and maiolica et al. 2007 [, ] (figure d and e). skyline uses the .ssl file and the assigned mzml files (created from raw files using msconvert []) to create a spectral library by bibliospec. peptide settings were as follows: enzyme: trypsin kr/p, max missed cleavages: 9, minimal length of peptide: 6, maximal length: 60, modifications: carbamidomethylation on cysteine, […]

PMCID: 5526835
PMID: 28712572
DOI: 10.1016/j.cub.2017.06.021

[…] rate on protein, peptide and site level., the prm data was analyzed using skyline software []. the spectral library was built in skyline using the maxquant msms.txt file and the bibliospec algorithm. the background proteome was generated using uniprotkb homo sapiens database. precursor and product ion extracted chromatograms (xics) were generated using the following settings […]

PMCID: 5462478
PMID: 28615921
DOI: 10.1177/1177271917710948

[…] cysteine as a static modification. the protein false discovery rate, which was determined by a target-decoy search strategy, was set to 1%. the spectral library was generated from dda data using the bibliospec algorithm and skyline open-source software. in the build library tab in skyline, the cut-off score was set to 0.99., all dia data were imported and processed directly in skyline without […]

PMCID: 4540001
PMID: 26306205
DOI: 10.1038/sdata.2015.41

[…] details can be found in the raw data files (.raw or.mzml)., software used in the generation of this project is largely third party software as described in the data records section, i.e., msgf+ and bibliospec. the only remaining software was to link protein identifications to kegg functional assignments. this was done via custom parsing of the files and cross-referencing the kegg database. […]

PMCID: 4398503
PMID: 25678338
DOI: 10.1002/mbo3.229

[…] and ms1 ion intensity chromatogram processing in skyline were described recently in detail by schilling et al. (). briefly, comprehensive spectral libraries were generated in skyline using the bibliospec algorithm (frewen and maccoss ) from database searches of the raw data files prior to ms1 filtering. subsequently, raw files acquired in data-dependent mode were directly imported […]

To access a full list of publications, you will need to upgrade to our premium service.

BiblioSpec institution(s)
University of Washington, Seattle, WA, USA

BiblioSpec reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review BiblioSpec