C
Can Firtina
Researcher at Bilkent University
Publications - 12
Citations - 257
Can Firtina is an academic researcher from Bilkent University. The author has contributed to research in topics: Reference genome & Error detection and correction. The author has an hindex of 6, co-authored 10 publications receiving 134 citations. Previous affiliations of Can Firtina include ETH Zurich.
Papers
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Proceedings ArticleDOI
GenASM: A High-Performance, Low-Power Approximate String Matching Acceleration Framework for Genome Sequence Analysis
Damla Senol Cali,Kalsi Gurpreet S,Zülal Bingöl,Can Firtina,Lavanya Subramanian,Jeremie S. Kim,Rachata Ausavarungnirun,Mohammed Alser,Juan Gómez-Luna,Amirali Boroumand,Anant Norion,Allison Scibisz,Sreenivas Subramoneyon,Can Alkan,Saugata Ghose,Onur Mutlu +15 more
TL;DR: GenASM as discussed by the authors accelerates read alignment for both long reads and short reads, with 3.7× the performance of a state-of-the-art pre-alignment filter.
Journal ArticleDOI
On Genomic Repeats and Reproducibility
Can Firtina,Can Alkan +1 more
TL;DR: Algorithms at each step of genomic variation discovery and characterization need to treat ambiguous mappings in a deterministic fashion to ensure full replication of results.
Journal ArticleDOI
Apollo: a sequencing-technology-independent, scalable and accurate assembly polishing algorithm.
Can Firtina,Jeremie S. Kim,Jeremie S. Kim,Mohammed Alser,Damla Senol Cali,A. Ercument Cicek,Can Alkan,Onur Mutlu,Onur Mutlu,Onur Mutlu +9 more
TL;DR: Apollo as discussed by the authors is a universal assembly polishing algorithm that scales well to polish an assembly of any size using reads from all sequencing technologies (i.e. second-and third-generation).
Journal ArticleDOI
Hercules: a profile HMM-based hybrid error correction algorithm for long reads.
TL;DR: Hercules is proposed, the first machine learning-based long read error correction algorithm, which learns a posterior transition/emission probability distribution for each long read to correct errors in these reads.
Journal ArticleDOI
GLANET: genomic loci annotation and enrichment tool
TL;DR: GLANET is presented as a comprehensive annotation and enrichment analysis tool which implements a sampling‐based enrichment test that accounts for GC content and/or mappability biases, jointly or separately.