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Novor specifications

Information


Unique identifier OMICS_09388
Name Novor
Software type Framework/Library
Interface Command line interface
Restrictions to use Academic or non-commercial use
Operating system Unix/Linux, Mac OS, Windows
Programming languages Java, Javascript
Parallelization MapReduce
Computer skills Advanced
Version 1.1
Stability Stable
High performance computing Yes
Maintained Yes

Versioning


No version available

Publication for Novor

Novor citations

 (7)
library_books

Elucidation of cross species proteomic effects in human and hominin bone proteome identification through a bioinformatics experiment

2018
PMCID: 5819086
PMID: 29463217
DOI: 10.1186/s12862-018-1141-1

[…] by the use of a dedicated algorithm (for example mascot, byonic or maxquant; [–]), or through de novo only protein sequencing without a provided protein sequence database (for example peaks de novo, novor or pepnovo; [–]). de novo algorithms suffer from high rates of incorrect peptide sequence identifications, however []. hence, the adoption of error-tolerant algorithms that utilize protein […]

library_books

Disseminating Metaproteomic Informatics Capabilities and Knowledge Using the Galaxy P Framework

2018
PMCID: 5874766
PMID: 29385081
DOI: 10.3390/proteomes6010007

[…] search algorithm of choice. although the galaxy-deployed searchgui tool offers the use of multiple database search algorithms (e.g., ms-gf+, myrimatch, omssa, comet, myrimatch, ms-amanda and novor), x!tandem was determined to have a balance of speed and sensitivity that made it a good choice, especially for a training resource. the outputs from searchgui are further filtered […]

library_books

Data from proteome analysis of Lasiodiplodia theobromae (Botryosphaeriaceae)

2017
PMCID: 5447515
PMID: 28580409
DOI: 10.1016/j.dib.2017.04.058

[…] results and explore peptides via sequence homology with sequenced proteins found in the entire uniprot database using blast. the program denovogui version 1.14.5 was used for this purpose , and both novor and pepnovo were used for peptide sequencing. the mass allowance parameters were, for precursor mass tolerance: 10 ppm, and a fragment mass tolerance of 0.5 da. post-translational […]

library_books

Covariation of Peptide Abundances Accurately Reflects Protein Concentration Differences*

2017
PMCID: 5417831
PMID: 28302922
DOI: 10.1074/mcp.O117.067728

[…] and processed as described in reference (). instead of performing traditional ms/ms database search, we used denovogui (ver. 1.14.5) () that contains the de novo sequencing software novor () to generate full-length peptide sequences directly from the ms/ms spectra, with 10 ppm precursor mass tolerance and 15 ppm fragment mass tolerance. carbamidomethylation of cysteine was set […]

library_books

Novel proteins from proteomic analysis of the trunk disease fungus Lasiodiplodia theobromae (Botryosphaeriaceae)

2017
PMCID: 5802045
PMID: 29450146
DOI: 10.1016/j.biopen.2017.03.001

[…] and explore peptides via sequence homology with sequenced proteins found in the entire uniprot database using blastp. the program denovogui version 1.14.5 was used for this purpose , and both novor and pepnovo were used for peptide sequencing. the mass allowance parameters were, for precursor mass tolerance: 10 ppm, and a fragment mass tolerance of 0.5 da. post-translational […]

library_books

Peptide de novo sequencing of mixture tandem mass spectra

2016
PMCID: 5297990
PMID: 27329701
DOI: 10.1002/pmic.201500549

[…] concatenated purified and extracted spectra., the following programs were used for de novo sequencing: peaks (v7.0 build 20140912) , pnovo+ (v1.3) , pepnovo+ (v3.1 release 20101117) , , , and novor (v1.1) . the following parameters were used for all programs: parent mass tolerance – 10 ppm; fragment mass tolerance – 0.02 da; enzyme – trypsin; carbamidomethylated cysteine and oxidized […]


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Novor institution(s)
School of Computer Science, University of Waterloo, Waterloo, ON, Canada

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