This is the Linux app named Calis-p to run in Linux online whose latest release can be downloaded as calis-p-0.1.zip. It can be run online in the free hosting provider OnWorks for workstations.
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SCREENSHOTS
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Calis-p to run in Linux online
DESCRIPTION
Calis-p (The CALgary approach to ISotopes in proteomics) is a software package to directly extract stable carbon isotope fingerprints (SIFs) of individual species in a microbial community from a metaproteomic dataset. It takes the scored peptide-spectrum match (PSM) tables for samples and the calibration material, and the raw MS data in mzML format as input. In the first step, the software finds the isotopic peaks for each PSM and sums their intensities across a specified retention time window. The identified isotopic patterns (pairs of m/z value + summed intensities) together with the sum formula of the identified peptides are reported and used as the input for the second step of Calis-p to compute delta13C values for all peptides that pass a set of filters, as well as average delta13C values and standard errors for each species. The species delta13C values need to be corrected for instrument isotope fractionation by applying the offset determined using the reference material.Features
- SIF data is directly extracted from a standard metaproteomic dataset
- Efficently and reliably obtain SIF values for a large number of species in a microbial community sample in a high-throughput manner.
This is an application that can also be fetched from https://sourceforge.net/projects/calis-p/. It has been hosted in OnWorks in order to be run online in an easiest way from one of our free Operative Systems.
