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Last active August 29, 2015 14:24
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MSConvert Cheat Sheet
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readme.md

#MSConvert Cheat Sheet

Initial conversion from RAW. Titles in TPP Compatible format

	msconvert *.raw --filter "peakPicking true 1-" --filter "titleMaker <RunId>.<ScanNumber>.<ScanNumber>.<ChargeState>" -z

Select scans within a time range

	msconvert filename.mzML --filter "scanTime [2500,3000]"

Basic base peak relative filter

	msconvert --filter "threshold bpi-relative .005 most-intense"
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