Control: reassign -1 wnpp On Ma, 19 mai 20, 23:27:13, Filippo Rusconi wrote: > Source: toppic > Section: science > Priority: optional > Maintainer: The Debichem Group <debichem-de...@lists.alioth.debian.org> > Uploaders: Filippo Rusconi <lopi...@debian.org> > Build-Depends: debhelper-compat (= 12), > dpkg-dev (>= 1.18.25), > cmake (>= 3.12) > Standards-Version: 4.5.0 > Homepage: http://proteomics.informatics.iupui.edu/software/toppic/index.html > Vcs-Browser: https://salsa.debian.org/debian/toppic > Vcs-Git: https://salsa.debian.org/debian/toppic.git > > Package: wnpp > Severity: wishlist > Owner: Filippo Rusconi <lopi...@debian.org> > > ~~~~ > I intend to package the toppic software that is necessary to perform mass > spectrometry-based protein identifications. > > This software will become essential in my own laboratory research, along with > other software packages that I created and that I already maintain with the > debichem team. > > I will maintain the package within the debichem team. > > Package: toppic > Architecture: any > Depends: ${shlibs:Depends}, > ${misc:Depends} > Description: Top-down proteoform identification and characterization > The TopPIC Suite consists of four software tools for the interpretation > of top-down mass spectrometry data: TopFD, TopPIC, TopMG, and TopDiff. > . > - TopFD (Top-down mass spectral Feature Detection) is a software tool for > top-down spectral deconvolution and a successor to MS-Deconv. It groups > top-down spectral peaks into isotopomer envelopes and converts isotopomer > envelopes to monoisotopic neutral masses. In addition, it extracts > proteoform > features from LC-MS or CE-MS data. > . > - TopPIC (Top-down mass spectrometry based Proteoform Identification and > Characterization) identifies and characterizes proteoforms at the proteome > level by searching top-down tandem mass spectra against a protein sequence > database. TopPIC is a successor to MS-Align+. It efficiently identifies > proteoforms with unexpected alterations, such as mutations and > post-translational modifications (PTMs), accurately estimates the > statistical > significance of identifications, and characterizes reported proteoforms > with > unknown mass shifts. It uses several techniques, such as indexes, spectral > alignment, generation function methods, and the modification identification > score (MIScore), to increase the speed, sensitivity, and accuracy. > . > - TopMG (Top-down mass spectrometry based proteoform identification using > Mass > Graphs) is a software tool for identifying ultra-modified proteoforms by > searching top-down tandem mass spectra against a protein sequence > database. It > is capable of identifying proteoforms with multiple variable PTMs and > unexpected alterations, such as histone proteoforms and phosphorylated > ones. It > uses mass graphs, which efficiently represent candidate proteoforms with > multiple variable PTMs, to increase the speed and sensitivity in proteoform > identification. In addition, approximate spectrum-based filtering methods > are > employed for protein sequence filtering, and a Markov chain Monte Carlo > method > (TopMCMC) is used for estimating the statistical significance of > identifications. > . > - TopDiff (Top-down mass spectrometry-based identification of Differentially > expressed proteoforms) compares the abundances of proteoforms and finds > differentially expressed proteoforms by using identifications of top-down > mass > spectrometry data of several protein samples. > > Regards, > > Filippo > > -- > > ⢀⣴⠾⠻⢶⣦⠀ Filippo Rusconi, PhD > ⣾⠁⢠⠒⠀⣿⡁ Research scientist at CNRS > ⢿⡄⠘⠷⠚⠋⠀ Debian Developer > ⠈⠳⣄⠀⠀⠀⠀ http://msxpertsuite.org > http://www.debian.org
-- Looking after bugs filled against unknown packages
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