Citing FLAIR
============

If you use or discuss FLAIR, please cite the paper corresponding to
the version of FLAIR you used.

For FLAIR v3
------------

Felton, C., Galvez, A., Damle, T. *et al.*
Berger, A. H. & Brooks, A. N. Cancer gene variant identification and 
functional interpretation using long-read RNA sequencing.
*In preparation*,  bioRxiv pre-print available soon.

For FLAIR v2
------------

Tang, A. D., Felton, C., Hrabeta-Robinson, E. *et al.*
Detecting  haplotype-specific transcript variation in long reads with FLAIR2.
*Genome Biol.* **25**, 173 (2024). 
`DOI:10.1186/s13059-024-03301-y <https://doi.org/10.1186/s13059-024-03301-y>`_,
`PMID:38956576 <https://pubmed.ncbi.nlm.nih.gov/38956576/>`_

For FLAIR v1
------------

Tang, A. D., Soulette, C. M., van Baren, M. J. *et al.*
Full-length transcript characterization of SF3B1 mutation in chronic lymphocytic 
leukemia reveals downregulation of retained introns.
*Nat. Commun.*  **11**, 1438 (2020). 
`DOI:10.1038/s41467-020-15171-6 <https://doi.org/10.1038/s41467-020-15171-6>`_,
`PMID:32188845 <https://pubmed.ncbi.nlm.nih.gov/32188845/>`_