SequenceCoverageCalculator
set of programs implementing The OpenMS Proteomic Pipeline
Install
- All systems
-
curl cmd.cat/SequenceCoverageCalculator.sh
- Debian
-
apt-get install topp - Ubuntu
-
apt-get install topp - Kali Linux
-
apt-get install topp - Fedora
-
dnf install openms-tools - Windows (WSL2)
-
sudo apt-get updatesudo apt-get install topp - Raspbian
-
apt-get install topp - Dockerfile
- dockerfile.run/SequenceCoverageCalculator
topp
set of programs implementing The OpenMS Proteomic Pipeline
TOPP (the OpenMS proteomic pipeline) is a pipeline for the analysis of HPLC/MS data. It consists of a set of numerous small applications that can be chained together to create analysis pipelines tailored for a specific problem. The applications make use of the libopenms library. Some examples of these applications are : - TOPPView: A viewer for mass spectrometry data. - TOPPAS: An assistant for GUI-driven TOPP workflow design. - DTAExtractor: Extracts spectra of an MS run file to several files in DTA format. - FileConverter: Converts between different MS file formats. - FileFilter: Extracts or manipulates portions of data from peak, feature or consensus feature files. - SpectraMerger: Merges spectra from an LC/MS map, either by precursor or by RT blocks. - BaselineFilter: Removes the baseline from profile spectra using a top-hat filter. - InternalCalibration: Applies an internal calibration. - PTModel: Trains a model for the prediction of proteotypic peptides from a training set. - RTPredict: Predicts retention times for peptides using a model trained by RTModel. - ExecutePipeline: Executes workflows created by TOPPAS.