Faraz Hach

发表

Faster Phylogenetic Inference with MXG

David G. Mitchell, Faraz Hach, Raheleh Mohebali, 2007, LPAR.

SCALCE: boosting sequence compression algorithms using locally consistent encoding

Faraz Hach, Süleyman Cenk Sahinalp, Can Alkan, 2012, Bioinform..

Alignment-free clustering of UMI tagged DNA molecules

Faraz Hach, Cedric Chauve, Baraa Orabi, 2018, Bioinform..

DeeZ: reference-based compression by local assembly

Faraz Hach, Ibrahim Numanagic, S Cenk Sahinalp, 2014, Nature Methods.

SOLVING NP SEARCH PROBLEMS WITH MODEL EXPANSION

Faraz Hach, Faraz Hach, 2007 .

Discovery and genotyping of novel sequence insertions in many sequenced individuals

Faraz Hach, Tunga Güngör, Can Alkan, 2017, Bioinform..

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

Faraz Hach, Iman Hajirasouliha, Colin Collins, 2011, Bioinform..

Dynamic Alignment-Free and Reference-Free Read Compression

Faraz Hach, Jens Stoye, Roland Wittler, 2018, J. Comput. Biol..

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

Faraz Hach, Nilgun Donmez, Colin Collins, 2014, Bioinform..

Detecting High Scoring Local Alignments in Pangenome Graphs

Faraz Hach, Jens Stoye, Roland Wittler, 2020, bioRxiv.

HASLR: Fast Hybrid Assembly of Long Reads

Faraz Hach, Jens Stoye, Cedric Chauve, 2020, iScience.

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

Faraz Hach, Colin Collins, Süleyman Cenk Sahinalp, 2012, WABI.

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

Faraz Hach, Haixu Tang, Süleyman Cenk Sahinalp, 2018, Bioinform..

Sensitive and fast mapping of di-base encoded reads

Faraz Hach, Süleyman Cenk Sahinalp, Can Alkan, 2011, Bioinform..

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

Inanç Birol, Faraz Hach, Colin Collins, 2012, Bioinform..

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

Faraz Hach, Süleyman Cenk Sahinalp, Can Alkan, 2014, Nucleic Acids Res..

Scalable mapping and compression of high throughput genome sequencing data

Faraz Hach, 2013 .

CoLoRMap: Correcting Long Reads by Mapping short reads

Faraz Hach, Cédric Chauve, Süleyman Cenk Sahinalp, 2016, Bioinform..

PhISCS: a combinatorial approach for subperfect tumor phylogeny reconstruction via integrative use of single-cell and bulk sequencing data

Faraz Hach, Simone Ciccolella, Iman Hajirasouliha, 2018, Genome Research.

HASLR: Fast Hybrid Assembly of Long Reads

Faraz Hach, Jens Stoye, Cedric Chauve, 2020, bioRxiv.

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

Faraz Hach, Süleyman Cenk Sahinalp, Ehsan Haghshenas, 2018, Bioinform..

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

Faraz Hach, Yen-Yi Lin, Hossein Asghari, 2019, Bioinform..

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

Faraz Hach, Alexander Wyatt, Colin Collins, 2017, Bioinform..

Dynamic Alignment-Free and Reference-Free Read Compression

Faraz Hach, Jens Stoye, Roland Wittler, 2018, J. Comput. Biol..

Fast characterization of segmental duplications in genome assemblies

Faraz Hach, Bonnie Berger, Can Alkan, 2018, Bioinform..

Sensitive and fast mapping of di-base encoded reads

Faraz Hach, Süleyman Cenk Sahinalp, Can Alkan, 2011, Bioinform..

Comparison of high-throughput sequencing data compression tools

Faraz Hach, Jörn Ostermann, Marco Mattavelli, 2016, Nature Methods.

Next-generation VariationHunter: combinatorial algorithms for transposon insertion discovery

Faraz Hach, Iman Hajirasouliha, Süleyman Cenk Sahinalp, 2010, Bioinform..

mrsFAST: a cache-oblivious algorithm for short-read mapping

Faraz Hach, Inanc Birol, Can Alkan, 2010, Nature Methods.

Fast characterization of segmental duplication structure in multiple genome assemblies

Faraz Hach, Can Alkan, Ibrahim Numanagic, 2022, Algorithms for Molecular Biology.

Detecting high-scoring local alignments in pangenome graphs

Faraz Hach, Jens Stoye, Sven Rahmann, 2021, Bioinform..

MXG : A Model Expansion Grounder and Solver

Faraz Hach, Raheleh Mohebali, David G. Mitchell, .

PhISCS: a combinatorial approach for subperfect tumor phylogeny reconstruction via integrative use of single-cell and bulk sequencing data

Faraz Hach, Simone Ciccolella, Salem Malikic, 2019, Genome Research.

Robustness of Massively Parallel Sequencing Platforms

Faraz Hach, Tunga Güngör, Can Alkan, 2015, PloS one.

Fast and accurate mapping of Complete Genomics

Faraz Hach, Onur Mutlu, Can Alkan, 2015 .

Spatial genomic heterogeneity within localized, multifocal prostate cancer

Faraz Hach, Robert E Denroche, Neil Fleshner, 2015, Nature Genetics.