proBAMconvert is a conversion tool to convert common peptide identification files (mzIdentML, pepXML, mzTAB) to the proBAM or proBED format, as defined by the HUPO Proteomics Standards Initiative. In essence, proBAMconvert reads peptide identification files, maps identified peptides onto the genome and writes output into the proBAM/proBED format.
For more information about how proBAMconvert works you can consult the manual,
where proBAMconvert is explained step by step alongside a tutorial. Click here to open the manual.
We are constantly looking for ways to improve proBAMconvert, if you encounter any issues or have some suggestions don't hesitate to post on our
github issue page.
link to galaxy test toolshed
proBAMconvert is also available on our galaxy server
link to proBAMconvert bioconda package
(credits to Björn Grüning and Jim Johnson)
Please use the following citation when refering to proBAMconvert:
proBAMconvert: A Conversion Tool for proBAM/proBed,
Volodimir Olexiouk and Gerben Menschaert,
Journal of Proteome Research Article ASAP,