Publications by authors named "Vikram Shivakumar"

Claim this Profile
C
Col-BWT: Pangenomic Seed Chaining with Maximal Matches Improves Read Classification.
Nathaniel K Brown, Vikram S Shivakumar, Ben Langmead

J Comput Biol· December 2025

Social Media Activity not collected for this article yet.

Sign Up to Request Social Media Analysis
P
Partitioned Multi-MUM finding for scalable pangenomics with MumemtoM.
Vikram S Shivakumar, Ben Langmead

Genome Res· November 2025

Social Media Activity not collected for this article yet.

Sign Up to Request Social Media Analysis
P
Prefix-free parsing for merging big BWTs.
Diego Díaz-Domínguez, Travis Gagie, Veronica Guerrini, Ben Langmead, Zsuzsanna Lipták, Vikram Shivakumar

Int Symp String Process Inf Retr· September 2025

Social Media Activity not collected for this article yet.

Sign Up to Request Social Media Analysis
F
Fast and flexible minimizer digestion with digest.
Alan Zheng, Ishmeal Lee, Vikram S Shivakumar, Omar Y Ahmed, Ben Langmead

Bioinformatics· July 2025

Social Media Activity not collected for this article yet.

Sign Up to Request Social Media Analysis
M
Mumemto: efficient maximal matching across pangenomes.
Vikram S Shivakumar, Ben Langmead

Genome Biol· June 2025

Social Media Activity not collected for this article yet.

Sign Up to Request Social Media Analysis
P
Partitioned Multi-MUM finding for scalable pangenomics.
Vikram S Shivakumar, Ben Langmead

bioRxiv· May 2025

Social Media Activity not collected for this article yet.

Sign Up to Request Social Media Analysis
U
Uncalled4 improves nanopore DNA and RNA modification detection via fast and accurate signal alignment.
Sam Kovaka, Paul W Hook, Katharine M Jenike, Vikram Shivakumar, Luke B Morina

Nat Methods· April 2025

Social Media Activity not collected for this article yet.

Sign Up to Request Social Media Analysis
M
Mumemto: efficient maximal matching across pangenomes.
Vikram S Shivakumar, Ben Langmead

bioRxiv· January 2025

Social Media Activity not collected for this article yet.

Sign Up to Request Social Media Analysis
F
Fast and flexible minimizer digestion with digest.
Alan Zheng, Ishmeal Lee, Vikram S Shivakumar, Omar Y Ahmed, Ben Langmead

bioRxiv· January 2025

Social Media Activity not collected for this article yet.

Sign Up to Request Social Media Analysis
I
Improved pangenomic classification accuracy with chain statistics.
Nathaniel K Brown, Vikram S Shivakumar, Ben Langmead

bioRxiv· November 2024

Social Media Activity not collected for this article yet.

Sign Up to Request Social Media Analysis
S
Sigmoni: classification of nanopore signal with a compressed pangenome index.
Vikram S Shivakumar, Omar Y Ahmed, Sam Kovaka, Mohsen Zakeri, Ben Langmead

Bioinformatics· June 2024

Social Media Activity not collected for this article yet.

Sign Up to Request Social Media Analysis
U
Uncalled4 improves nanopore DNA and RNA modification detection via fast and accurate signal alignment.
Sam Kovaka, Paul W Hook, Katharine M Jenike, Vikram Shivakumar, Luke B Morina

bioRxiv· March 2024

Social Media Activity not collected for this article yet.

Sign Up to Request Social Media Analysis
S
Sigmoni: classification of nanopore signal with a compressed pangenome index.
Vikram S Shivakumar, Omar Y Ahmed, Sam Kovaka, Mohsen Zakeri, Ben Langmead

bioRxiv· August 2023

Social Media Activity not collected for this article yet.

Sign Up to Request Social Media Analysis
R
riboviz 2: a flexible and robust ribosome profiling data analysis and visualization workflow.
Alexander L Cope, Felicity Anderson, John Favate, Michael Jackson, Amanda Mok, Vikram Shivakumar

Bioinformatics· April 2022

Social Media Activity not collected for this article yet.

Sign Up to Request Social Media Analysis
L
Leaf Transcriptome Assembly of (Burseraceae) and Annotation of Terpene Biosynthetic Genes.
Gabriel Damasco, Vikram S Shivakumar, Tracy M Misciewicz, Douglas C Daly, Paul V A Fine

Genes (Basel)· May 2019

Social Media Activity not collected for this article yet.

Sign Up to Request Social Media Analysis
S
SNP2SIM: a modular workflow for standardizing molecular simulation and functional analysis of protein variants.
Matthew D McCoy, Vikram Shivakumar, Sridhar Nimmagadda, Mohsin Saleet Jafri, Subha Madhavan

BMC Bioinformatics· April 2019

Social Media Activity not collected for this article yet.

Sign Up to Request Social Media Analysis
T
Transcriptome analysis of the curry tree (Bergera koenigii L., Rutaceae) during leaf development.
Vikram S Shivakumar, Gabriel Johnson, Elizabeth A Zimmer

Sci Rep· March 2019

Social Media Activity not collected for this article yet.

Sign Up to Request Social Media Analysis
A
Analysis of whole chloroplast genomes from the genera of the Clauseneae, the curry tribe (Rutaceae, Citrus family).
Vikram S Shivakumar, Marc S Appelhans, Gabriel Johnson, Monica Carlsen, Elizabeth A Zimmer

Mol Phylogenet Evol· December 2017

Social Media Activity not collected for this article yet.

Sign Up to Request Social Media Analysis