Faraz Hach

Publication Activity (10 Years)

Years Active: 2007-2022
Publications (10 Years): 14

Top Topics

Subgraph Isomorphism

Electro Mechanical Systems

Phylogenetic Analysis

Top Venues

J. Comput. Biol.

Publications

Hamza Iseric, Can Alkan, Faraz Hach, Ibrahim Numanagic
Fast characterization of segmental duplication structure in multiple genome assemblies. Algorithms Mol. Biol. 17 (1) (2022)
Hamza Iseric, Can Alkan, Faraz Hach, Ibrahim Numanagic
BISER: Fast Characterization of Segmental Duplication Structure in Multiple Genome Assemblies. WABI (2021)
Tizian Schulz, Roland Wittler, Sven Rahmann, Faraz Hach, Jens Stoye
Detecting high-scoring local alignments in pangenome graphs. Bioinform. 37 (16) (2021)
Hossein Asghari, Yen-Yi Lin, Yang Xu, Ehsan Haghshenas, Colin C. Collins, Faraz Hach
CircMiner: accurate and rapid detection of circular RNA through splice-aware pseudo-alignment scheme. Bioinform. 36 (12) (2020)
Baraa Orabi, Emre Erhan, Brian McConeghy, Stanislav V. Volik, Stephane Le Bihan, Robert Bell, Colin C. Collins, Cédric Chauve, Faraz Hach
Alignment-free clustering of UMI tagged DNA molecules. Bioinform. 35 (11) (2019)
Ehsan Haghshenas, Süleyman Cenk Sahinalp, Faraz Hach
lordFAST: sensitive and Fast Alignment Search Tool for LOng noisy Read sequencing Data. Bioinform. 35 (1) (2019)
Yen-Yi Lin, Alexander Gawronski, Faraz Hach, Sujun Li, Ibrahim Numanagic, Iman Sarrafi, Swati Mishra, Andrew W. McPherson, Colin C. Collins, Milan Radovich, Haixu Tang, Süleyman Cenk Sahinalp
Computational identification of micro-structural variations and their proteogenomic consequences in cancer. Bioinform. 34 (10) (2018)
Ibrahim Numanagic, Alim S. Gökkaya, Lillian Zhang, Bonnie Berger, Can Alkan, Faraz Hach
Fast Characterization of Segmental Duplications in Genome Assemblies. CoRR (2018)
Ibrahim Numanagic, Alim S. Gökkaya, Lillian Zhang, Bonnie Berger, Can Alkan, Faraz Hach
Fast characterization of segmental duplications in genome assemblies. Bioinform. 34 (17) (2018)
Guillaume Holley, Roland Wittler, Jens Stoye, Faraz Hach
Dynamic Alignment-Free and Reference-Free Read Compression. J. Comput. Biol. 25 (7) (2018)
Guillaume Holley, Roland Wittler, Jens Stoye, Faraz Hach
Dynamic Alignment-Free and Reference-Free Read Compression. RECOMB (2017)
Can Kockan, Faraz Hach, Iman Sarrafi, Robert H. Bell, Brian McConeghy, Kevin Beja, Anne Haegert, Alexander W. Wyatt, Stanislav Volik, Kim N. Chi, Colin C. Collins, Süleyman Cenk Sahinalp
SiNVICT: ultra-sensitive detection of single nucleotide variants and indels in circulating tumour DNA. Bioinform. 33 (1) (2017)
Pinar Kavak, Yen-Yi Lin, Ibrahim Numanagic, Hossein Asghari, Tunga Güngör, Can Alkan, Faraz Hach
Discovery and genotyping of novel sequence insertions in many sequenced individuals. Bioinform. 33 (14) (2017)
Ehsan Haghshenas, Faraz Hach, Süleyman Cenk Sahinalp, Cédric Chauve
CoLoRMap: Correcting Long Reads by Mapping short reads. Bioinform. 32 (17) (2016)
Phuong Dao, Ibrahim Numanagic, Yen-Yi Lin, Faraz Hach, Emre Karakoç, Nilgun Donmez, Colin C. Collins, Evan E. Eichler, Süleyman Cenk Sahinalp
ORMAN: Optimal resolution of ambiguous RNA-Seq multimappings in the presence of novel isoforms. Bioinform. 30 (5) (2014)
Faraz Hach, Iman Sarrafi, Farhad Hormozdiari, Can Alkan, Evan E. Eichler, Süleyman Cenk Sahinalp
mrsFAST-Ultra: a compact, SNP-aware mapper for high performance sequencing applications. Nucleic Acids Res. 42 (Webserver-Issue) (2014)
Deniz Yörükoglu, Faraz Hach, Lucas Swanson, Colin C. Collins, Inanç Birol, Süleyman Cenk Sahinalp
Dissect: detection and characterization of novel structural alterations in transcribed sequences. Bioinform. 28 (12) (2012)
Faraz Hach, Ibrahim Numanagic, Can Alkan, Süleyman Cenk Sahinalp
SCALCE: boosting sequence compression algorithms using locally consistent encoding. Bioinform. 28 (23) (2012)
Farhad Hormozdiari, Faraz Hach, Süleyman Cenk Sahinalp, Evan E. Eichler, Can Alkan
Sensitive and fast mapping of di-base encoded reads. Bioinform. 28 (1) (2012)
Yen-Yi Lin, Phuong Dao, Faraz Hach, Marzieh Bakhshi, Fan Mo, Anna Lapuk, Colin C. Collins, Süleyman Cenk Sahinalp
CLIIQ: Accurate Comparative Detection and Quantification of Expressed Isoforms in a Population. WABI (2012)
Farhad Hormozdiari, Faraz Hach, Süleyman Cenk Sahinalp, Evan E. Eichler, Can Alkan
Sensitive and fast mapping of di-base encoded reads. Bioinform. 27 (14) (2011)
Andrew W. McPherson, Chunxiao Wu, Iman Hajirasouliha, Fereydoun Hormozdiari, Faraz Hach, Anna Lapuk, Stanislav Volik, Sohrab P. Shah, Colin C. Collins, Süleyman Cenk Sahinalp
Comrad: detection of expressed rearrangements by integrated analysis of RNA-Seq and low coverage genome sequence data. Bioinform. 27 (11) (2011)
Fereydoun Hormozdiari, Iman Hajirasouliha, Phuong Dao, Faraz Hach, Deniz Yörükoglu, Can Alkan, Evan E. Eichler, Süleyman Cenk Sahinalp
Next-generation VariationHunter: combinatorial algorithms for transposon insertion discovery. Bioinform. 26 (12) (2010)
David G. Mitchell, Faraz Hach, Raheleh Mohebali
Faster Phylogenetic Inference with MXG. LPAR (2007)