This release accompanies the Flair 2.0 paper https://www.biorxiv.org/content/10.1101/2023.06.09.544396v1
- Fixes tickets (#261 #234)
- Moves or links some scripts to /bin so users have access
- Adds FAQ; updates documentation
- Removes sam flag name extension from bed files because users have trouble getting it to parse their own IDs properly.
- Adds --nvrna tag to flair quantify to allow for strand-aware alignment, like used in flair align
- Adds quoting to handle wildcard characters in filenames
- Removes obsolete fusion_dist option from collapse