Table Of Contents

Export Glycan Search Results

glycresoft stores its search results in a SQLite3 database like the one it writes hypotheses into. This lets it search for results quickly, but the format is not as easy to read through as a text file, and adds extra layers of complexity to find information requiring complex SQL queries. It’s possible to export search results in several other formats which can be read by other tools.

glycresoft export glycan-identification

Write each glycan chromatogram in CSV format

glycresoft export glycan-identification [OPTIONS] DATABASE_CONNECTION
                                        ANALYSIS_IDENTIFIER

Options

-o, --output-path <path>

Path to write to instead of stdout

-r, --report

Export an HTML report instead of a CSV [default: False]

-t, --threshold <float>

Minimum score threshold to include [default: 0]

Arguments

DATABASE_CONNECTION

Required argument <databaseconnectionparam> A connection URI for a database, or a path on the file system

ANALYSIS_IDENTIFIER

Required argument <string> The ID number or name of the glycan analysis to use