cnic-proteomics Goto Github PK

biodatahub

Scripts that create databases used by iSanXoT

bolflow

comet-ptm

Comet-PTM, branch of Comet MS/MS

corrnetwork

csvtoquixml

Data converter from a tab-separated text file to a QuiXML file to be used in QuiXoT.

databases

dbcleaner

fetchcmm

framingham10

get_gene

R script that extracts Gene names from the FASTA identifiers for each row in an IDq file.

identification

iq-proteo

Snakemake workflow developed by the Proteomic Unit in CNIC

isanxot

Stand-alone application that executes workflows for quantitative high-throughput proteomics, systems biology and the statistical analysis, integration and comparison of experiments, based on SanXoT integrations.

mascottoquixml

Program used in combination with mgfToBinStack to import data from Mascot to be used in QuiXoT by converting Mascot's DAT files into QuiXML files.

mgftobinstack

Software used in combination with MascotToQuiXML to import spectral data from Mascot's MGF files to be used in QuiXoT by converting them into binStack binary files.

micodis

multiomics-pipeline

Set of Jupyter Notebooks, scripts and libraries to perform the multiomics integration.

mz_extractor

next-launcher

Core for the next-Launcher: backend and frontend systems

next-launcher-app

Web application for the next-Launcher system

nextflow-api

Nextflow-API is a web application and REST API for submitting and monitoring Nextflow pipelines on a variety of execution environments.

nf-modules

Modules for nextflow pipelines

nf-ptm-compass

nf-PTM-compass is a Nextflow pipeline that enhances the identification and quantification of Post-Translational Modifications (PTMs).

nf-ptm-solver

Nextflow for SOLVER pipeline

nf-refrag

Nextflow for ReFrag pipeline

nf-searchengine

nf-SearchEngine is a Nextflow pipeline that execute the MSFragger search engine for the peptide identification.

nf-shifts

Nextflow for SHIFTS pipeline

panteomics

Peptidoform Annotation Tool for proteomic analysis

pratio

A SEQUEST protein identification validator program created to calculate the probability of random peptide matching and the FDR when a large collection of MS2 spectra is searched against a database using SEQUEST.

pratio_r

R programn that calculate the probability of random peptide matching and the FDR when a large collection of MS2 spectra is searched against a database using SEQUEST