Idoia Ochoa

Publication Activity (10 Years)

Years Active: 2010-2024
Publications (10 Years): 30

Top Topics

Data Compression

Mass Spectrometry

Arithmetic Coding

Top Venues

J. Bioinform. Comput. Biol.

Publications

Guillermo Dufort y Álvarez, Martí Xargay-Ferrer, Alba Pagès-Zamora, Idoia Ochoa
EMVC-2: an efficient single-nucleotide variant caller based on expectation maximization. Bioinform. 40 (3) (2024)
Jesus de la Fuente, Guillermo Serrano, Uxía Veleiro, Mikel Casals, Laura Vera, Marija Pizurica, Antonio Pineda-Lucena, Idoia Ochoa, Silve Vicent, Olivier Gevaert, Mikel Hernaez
Towards a more inductive world for drug repurposing approaches. CoRR (2023)
Leah L. Weber, Chuanyi Zhang, Idoia Ochoa, Mohammed El-Kebir
Phertilizer: Growing a clonal tree from ultra-low coverage single-cell DNA sequencing of tumors. PLoS Comput. Biol. 19 (10) (2023)
Alba Pagès-Zamora, Idoia Ochoa, Gonzalo Ruiz Cavero, Pol Villalvilla-Ornat
Unsupervised ensemble learning for genome sequencing. Pattern Recognit. 129 (2022)
Felix Hanau, Hannes Röst, Idoia Ochoa
mspack: efficient lossless and lossy mass spectrometry data compression. Bioinform. 37 (21) (2021)
Mohit Goyal, Kedar Tatwawadi, Shubham Chandak, Idoia Ochoa
DZip: improved general-purpose loss less compression based on novel neural network modeling. DCC (2021)
Guillermo Dufort y Álvarez, Gadiel Seroussi, Pablo Smircich, José Sotelo-Silveira, Idoia Ochoa, Álvaro Martín
RENANO: a REference-based compressor for NANOpore FASTQ files. Bioinform. 37 (24) (2021)
Jan Voges, Tom Paridaens, Fabian Müntefering, Liudmila S. Mainzer, Brian Bliss, Mingyu Yang, Idoia Ochoa, Jan Fostier, Jörn Ostermann, Mikel Hernaez
GABAC: an arithmetic coding solution for genomic data. Bioinform. 36 (7) (2020)
Chuanyi Zhang, Idoia Ochoa
VEF: a variant filtering tool based on ensemble methods. Bioinform. 36 (8) (2020)
Qingxi Meng, Idoia Ochoa, Mikel Hernaez
GPress: a framework for querying general feature format (GFF) files and expression files in a compressed form. Bioinform. 36 (18) (2020)
Guillermo Dufort y Álvarez, Gadiel Seroussi, Pablo Smircich, José Sotelo, Idoia Ochoa, Álvaro Martín, Inanç Birol
ENANO: Encoder for NANOpore FASTQ files. Bioinform. 36 (16) (2020)
Albert No, Mikel Hernaez, Idoia Ochoa
CROMqs: An infinitesimal successive refinement lossy compressor for the quality scores. J. Bioinform. Comput. Biol. 18 (6) (2020)
Mohit Goyal, Kedar Tatwawadi, Shubham Chandak, Idoia Ochoa
DZip: Improved General-Purpose Lossless Compression Based on Novel Neural Network Modeling. DCC (2020)
Guillermo Dufort y Álvarez, Gadiel Seroussi, Pablo Smircich, José Sotelo, Idoia Ochoa, Álvaro Martín
Compression of Nanopore FASTQ Files. IWBBIO (1) (2019)
Idoia Ochoa, Hongyi Li, Florian Baumgarte, Charles Hergenrother, Jan Voges, Mikel Hernaez
AliCo: A New Efficient Representation for SAM Files. DCC (2019)
Mohit Goyal, Kedar Tatwawadi, Shubham Chandak, Idoia Ochoa
DZip: improved general-purpose lossless compression based on novel neural network modeling. CoRR (2019)
Mohit Goyal, Kedar Tatwawadi, Shubham Chandak, Idoia Ochoa
DeepZip: Lossless Data Compression Using Recurrent Neural Networks. DCC (2019)
Shubham Chandak, Kedar Tatwawadi, Idoia Ochoa, Mikel Hernaez, Tsachy Weissman
SPRING: a next-generation compressor for FASTQ data. Bioinform. 35 (15) (2019)
Ruochen Yang, Xi Chen, Idoia Ochoa
MassComp, a lossless compressor for mass spectrometry data. BMC Bioinform. 20 (1) (2019)
Greg Malysa, Mikel Hernaez, Idoia Ochoa, Milind Rao, Karthik Ganesan, Tsachy Weissman
QVZ: lossy compression of quality values. Bioinform. 34 (1) (2018)
Mohit Goyal, Kedar Tatwawadi, Shubham Chandak, Idoia Ochoa
DeepZip: Lossless Data Compression using Recurrent Neural Networks. CoRR (2018)
Lukasz Roguski, Idoia Ochoa, Mikel Hernaez, Sebastian Deorowicz
FaStore: a space-saving solution for raw sequencing data. Bioinform. 34 (16) (2018)
Jianhao Peng, Olgica Milenkovic, Idoia Ochoa
METHCOMP: a special purpose compression platform for DNA methylation data. Bioinform. 34 (15) (2018)
Reggy Long, Mikel Hernaez, Idoia Ochoa, Tsachy Weissman
GeneComp, a New Reference-Based Compressor for SAM Files. DCC (2017)
Idoia Ochoa, Mikel Hernaez, Rachel L. Goldfeder, Tsachy Weissman, Euan A. Ashley
Effect of lossy compression of quality scores on variant calling. Briefings Bioinform. 18 (2) (2017)
Mikel Hernaez, Idoia Ochoa, Tsachy Weissman
A Cluster-Based Approach to Compression of Quality Scores. DCC (2016)
Idoia Ochoa, Mikel Hernaez, Rachel L. Goldfeder, Tsachy Weissman, Euan A. Ashley
Denoising of Quality Scores for Boosted Inference and Reduced Storage. DCC (2016)
Kedar Tatwawadi, Mikel Hernaez, Idoia Ochoa, Tsachy Weissman
GTRAC: fast retrieval from compressed collections of genomic variants. Bioinform. 32 (17) (2016)
Idoia Ochoa, Albert No, Mikel Hernaez, Tsachy Weissman
CROMqs: an infinitesimal successive refinement lossy compressor for the quality scores. ITW (2016)
Sebastian Deorowicz, Szymon Grabowski, Idoia Ochoa, Mikel Hernaez, Tsachy Weissman
Comment on: 'ERGC: an efficient referential genome compression algorithm'. Bioinform. 32 (7) (2016)
Greg Malysa, Mikel Hernaez, Idoia Ochoa, Milind Rao, Karthik Ganesan, Tsachy Weissman
QVZ: lossy compression of quality values. Bioinform. 31 (19) (2015)
Idoia Ochoa, Mikel Hernaez, Tsachy Weissman
iDoComp: a compression scheme for assembled genomes. Bioinform. 31 (5) (2015)
Idoia Ochoa, Mikel Hernaez, Tsachy Weissman
Aligned genomic data compression via improved modeling. J. Bioinform. Comput. Biol. 12 (6) (2014)
Idoia Ochoa, Amir Ingber, Tsachy Weissman
Compression Schemes for Similarity Queries. DCC (2014)
Idoia Ochoa, Amir Ingber, Tsachy Weissman
Efficient similarity queries via lossy compression. Allerton (2013)
Idoia Ochoa, Himanshu Asnani, Dinesh Bharadia, Mainak Chowdhury, Tsachy Weissman, Golan Yona
QualComp: a new lossy compressor for quality scores based on rate distortion theory. BMC Bioinform. 14 (2013)
Bobbie Chern, Idoia Ochoa, Alexandros Manolakos, Albert No, Kartik Venkat, Tsachy Weissman
Reference Based Genome Compression CoRR (2012)
Himanshu Asnani, Dinesh Bharadia, Mainak Chowdhury, Idoia Ochoa, Itai Sharon, Tsachy Weissman
Lossy Compression of Quality Values via Rate Distortion Theory CoRR (2012)
Bobbie Chern, Idoia Ochoa, Alexandros Manolakos, Albert No, Kartik Venkat, Tsachy Weissman
Reference based genome compression. ITW (2012)
Idoia Ochoa, Pedro M. Crespo, Mikel Hernaez
LDPC Codes for Non-Uniform Memoryless Sources and Unequal Energy Allocation. IEEE Commun. Lett. 14 (9) (2010)
Idoia Ochoa, Pedro M. Crespo, Javier Del Ser, Mikel Hernaez
Turbo joint source-channel coding of non-uniform memoryless sources in the bandwidth-limited regime. IEEE Commun. Lett. 14 (4) (2010)
Idoia Ochoa, Pedro M. Crespo, Javier Del Ser, Mikel Hernaez
Joint Turbo Coding and Source-Controlled Modulation of Cycle-Stationary Sources in the Bandwidth-Limited Regime. MOBILIGHT (2010)