mzml2isa - mzML to ISA-tab parsing tool
Parser to get meta information from mzML file and parse relevant information to a ISA-Tab structure
mzml2isa is a Python3 program that can be used to generate an ISA-Tab structure out of mzML files, providing the backbone of a study which can then be edited with an ISA editing tool (see MetaboLights pre-packaged ISA Creator)
- Currently the program does the following:
- Extract meta information from mzML files and store as either python dictionary or JSON format
- Create an ISA-Tab file structure with relevant meta information
- Add additional metadata that cannot be parsed from mzML files to the ISA-Tab files through a JSON formatted dictionnary.
mzml2isa -i /path/to/mzml_files/ -o /path/to/out_folder/ -s name_of_study
To download some real data from MetaboLights studies to test the converter with, run
python scripts/metabolights-dl.py <size>
from inside the repository, where size is the maximum size in GiB you can allocate to download files. The script will download the files to the example_files/metabolights folder and then run mzml2isa on those files..
If you use a *NIX machine with curlftpfs and bash available, you can also run
to mount the database to the example directory and start converting mzML studies.
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|Filename, size & hash SHA256 hash help||File type||Python version||Upload date|
|mzml2isa-0.4.19-py3-none-any.whl (143.0 kB) Copy SHA256 hash SHA256||Wheel||3.5|
|mzml2isa-0.4.19.tar.gz (125.2 kB) Copy SHA256 hash SHA256||Source||None|
|mzml2isa-0.4.19.zip (136.4 kB) Copy SHA256 hash SHA256||Source||None|