Towards Selective-Alignment: Bridging the Accuracy Gap Between Alignment-Based and Alignment-Free Transcript Quantification. Sarkar, H., Zakeri, M., Malik, L., & Patro, R. In Proceedings of the 2018 ACM International Conference on Bioinformatics, Computational Biology, and Health Informatics, of BCB '18, pages 27–36, New York, NY, USA, 2018. ACM.
Towards Selective-Alignment: Bridging the Accuracy Gap Between Alignment-Based and Alignment-Free Transcript Quantification [link]Paper  doi  bibtex   
@inproceedings{sarkar:2018:selaln,
 author = {Sarkar, Hirak and Zakeri, Mohsen and Malik, Laraib and Patro, Rob},
 title = {{Towards Selective-Alignment: Bridging the Accuracy Gap Between Alignment-Based and Alignment-Free Transcript Quantification}},
 booktitle = {{Proceedings of the 2018 ACM International Conference on Bioinformatics, Computational Biology, and Health Informatics}},
 series = {{BCB '18}},
 year = {2018},
 isbn = {978-1-4503-5794-4},
 location = {Washington, DC, USA},
 pages = {27--36},
 numpages = {10},
 url = {http://doi.acm.org/10.1145/3233547.3233589},
 doi = {10.1145/3233547.3233589},
 acmid = {3233589},
 publisher = {ACM},
 address = {New York, NY, USA},
 keywords = {alignment, mapping, quantification, rna-seq, selective alignment},
}

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