Hirak Sarkar

According to our database, Hirak Sarkar authored at least 14 papers between 2015 and 2024.

Collaborative distances:

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

2024

Mapping the Topography of Spatial Gene Expression with Interpretable Deep Learning.

Uthsav Chitra, Brian J. Arnold, Hirak Sarkar, Cong Ma, Sereno Lopez-Darwin, Kohei Sanno, Benjamin J. Raphael

Proceedings of the Research in Computational Molecular Biology, 2024

2022

Airpart: interpretable statistical models for analyzing allelic imbalance in single-cell datasets.

Wancen Mu, Hirak Sarkar, Avi Srivastava, Kwangbom Choi, Rob Patro, Michael I. Love

Bioinform., 2022

2021

Compression of quantification uncertainty for scRNA-seq counts.

Scott Van Buren, Hirak Sarkar, Avi Srivastava, Naim U. Rashid, Rob Patro, Michael I. Love

Bioinform., 2021

2020

Computational approaches for improving the accuracy and efficiency of RNA-seq analysis.

Hirak Sarkar

PhD thesis, 2020

A Bayesian framework for inter-cellular information sharing improves dscRNA-seq quantification.

Avi Srivastava, Laraib Malik, Hirak Sarkar, Rob Patro

Bioinform., 2020

Terminus enables the discovery of data-driven, robust transcript groups from RNA-seq data.

Hirak Sarkar, Avi Srivastava, Héctor Corrada Bravo, Michael I. Love, Rob Patro

Bioinform., 2020

Social Media Attributions in the Context of Water Crisis.

Rupak Sarkar, Sayantan Mahinder, Hirak Sarkar, Ashiqur R. KhudaBukhsh

Proceedings of the 2020 Conference on Empirical Methods in Natural Language Processing, 2020

2019

Minnow: a principled framework for rapid simulation of dscRNA-seq data at the read level.

Hirak Sarkar, Avi Srivastava, Rob Patro

Bioinform., 2019

2018

A space and time-efficient index for the compacted colored de Bruijn graph.

Fatemeh Almodaresi, Hirak Sarkar, Avi Srivastava, Rob Patro

Bioinform., 2018

Towards Selective-Alignment: Bridging the Accuracy Gap between Alignment-Based and Alignment-Free Transcript Quantification.

Hirak Sarkar, Mohsen Zakeri, Laraib Malik, Rob Patro

Proceedings of the 2018 ACM International Conference on Bioinformatics, 2018

2017

Quark enables semi-reference-based compression of RNA-seq data.

Hirak Sarkar, Rob Patro

Bioinform., 2017

2016

Accurate, Fast and Lightweight Clustering of de novo Transcriptomes using Fragment Equivalence Classes.

Avi Srivastava, Hirak Sarkar, Laraib Malik, Rob Patro

CoRR, 2016

RapMap: a rapid, sensitive and accurate tool for mapping RNA-seq reads to transcriptomes.

Avi Srivastava, Hirak Sarkar, Nitish Gupta, Rob Patro

Bioinform., 2016

2015

Voronoi game on graphs.

Sayan Bandyapadhyay, Aritra Banik, Sandip Das, Hirak Sarkar

Theor. Comput. Sci., 2015