Faraz Hach

According to our database, Faraz Hach authored at least 21 papers between 2007 and 2022.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of three.

2022

Fast characterization of segmental duplication structure in multiple genome assemblies.

Hamza Iseric, Can Alkan, Faraz Hach, Ibrahim Numanagic

Algorithms Mol. Biol., 2022

2021

Detecting high-scoring local alignments in pangenome graphs.

Tizian Schulz, Roland Wittler, Sven Rahmann, Faraz Hach, Jens Stoye

Bioinform., 2021

BISER: Fast Characterization of Segmental Duplication Structure in Multiple Genome Assemblies.

Hamza Iseric, Can Alkan, Faraz Hach, Ibrahim Numanagic

Proceedings of the 21st International Workshop on Algorithms in Bioinformatics, 2021

2020

CircMiner: accurate and rapid detection of circular RNA through splice-aware pseudo-alignment scheme.

Hossein Asghari, Yen-Yi Lin, Yang Xu, Ehsan Haghshenas, Colin C. Collins, Faraz Hach

Bioinform., 2020

2019

Alignment-free clustering of UMI tagged DNA molecules.

Baraa Orabi, Emre Erhan, Brian McConeghy, Stanislav V. Volik, Stephane Le Bihan, Robert Bell, Colin C. Collins, Cédric Chauve, Faraz Hach

Bioinform., 2019

lordFAST: sensitive and Fast Alignment Search Tool for LOng noisy Read sequencing Data.

Ehsan Haghshenas, Süleyman Cenk Sahinalp, Faraz Hach

Bioinform., 2019

2018

Dynamic Alignment-Free and Reference-Free Read Compression.

Guillaume Holley, Roland Wittler, Jens Stoye, Faraz Hach

J. Comput. Biol., 2018

Fast characterization of segmental duplications in genome assemblies.

Ibrahim Numanagic, Alim S. Gökkaya, Lillian Zhang, Bonnie Berger, Can Alkan, Faraz Hach

Bioinform., 2018

Computational identification of micro-structural variations and their proteogenomic consequences in cancer.

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

Bioinform., 2018

2017

SiNVICT: ultra-sensitive detection of single nucleotide variants and indels in circulating tumour DNA.

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

Bioinform., 2017

Discovery and genotyping of novel sequence insertions in many sequenced individuals.

Pinar Kavak, Yen-Yi Lin, Ibrahim Numanagic, Hossein Asghari, Tunga Güngör, Can Alkan, Faraz Hach

Bioinform., 2017

2016

CoLoRMap: Correcting Long Reads by Mapping short reads.

Ehsan Haghshenas, Faraz Hach, Süleyman Cenk Sahinalp, Cédric Chauve

Bioinform., 2016

2014

mrsFAST-Ultra: a compact, SNP-aware mapper for high performance sequencing applications.

Faraz Hach, Iman Sarrafi, Farhad Hormozdiari, Can Alkan, Evan E. Eichler, Süleyman Cenk Sahinalp

Nucleic Acids Res., 2014

ORMAN: Optimal resolution of ambiguous RNA-Seq multimappings in the presence of novel isoforms.

Phuong Dao, Ibrahim Numanagic, Yen-Yi Lin, Faraz Hach, Emre Karakoç, Nilgun Donmez, Colin C. Collins, Evan E. Eichler, Süleyman Cenk Sahinalp

Bioinform., 2014

2012

Dissect: detection and characterization of novel structural alterations in transcribed sequences.

Deniz Yörükoglu, Faraz Hach, Lucas Swanson, Colin C. Collins, Inanç Birol, Süleyman Cenk Sahinalp

Bioinform., 2012

Sensitive and fast mapping of di-base encoded reads.

Farhad Hormozdiari, Faraz Hach, Süleyman Cenk Sahinalp, Evan E. Eichler, Can Alkan

Bioinform., 2012

SCALCE: boosting sequence compression algorithms using locally consistent encoding.

Faraz Hach, Ibrahim Numanagic, Can Alkan, Süleyman Cenk Sahinalp

Bioinform., 2012

CLIIQ: Accurate Comparative Detection and Quantification of Expressed Isoforms in a Population.

Yen-Yi Lin, Phuong Dao, Faraz Hach, Marzieh Bakhshi, Fan Mo, Anna Lapuk, Colin C. Collins, Süleyman Cenk Sahinalp

Proceedings of the Algorithms in Bioinformatics - 12th International Workshop, 2012

2011

Comrad: detection of expressed rearrangements by integrated analysis of RNA-Seq and low coverage genome sequence data.

Andrew W. McPherson, Chunxiao Wu, Iman Hajirasouliha, Fereydoun Hormozdiari, Faraz Hach, Anna Lapuk, Stanislav Volik, Sohrab P. Shah, Colin C. Collins, Süleyman Cenk Sahinalp

Bioinform., 2011

2010

Next-generation VariationHunter: combinatorial algorithms for transposon insertion discovery.

Fereydoun Hormozdiari, Iman Hajirasouliha, Phuong Dao, Faraz Hach, Deniz Yörükoglu, Can Alkan, Evan E. Eichler, Süleyman Cenk Sahinalp

Bioinform., 2010

2007

Faster Phylogenetic Inference with MXG.

David G. Mitchell, Faraz Hach, Raheleh Mohebali

Proceedings of the Logic for Programming, 2007