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COMBINE-lab / salmon

🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment
https://combine-lab.github.io/salmon
GNU General Public License v3.0
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Suggestions on --recoverOrphans #959

Open LinearParadox opened 2 months ago

LinearParadox commented 2 months ago

Hi all,

Is there any suggestion/best practices on whether one should or should not use orphan recovery? My feeling is that it should be used in cases where the library quality maybe isn't the greatest, but i'm not sure about this.

Thanks all!