An optimized FM-index library for nucleotide and amino acid search

por Anderson, Tim, Wheeler, Travis J.
Publicado 2021

Mirage2’s high-quality spliced protein-to-genome mappings produce accurate multiple-sequence alignments of isoforms

por Nord, Alexander J., Wheeler, Travis J.
Publicado 2023

nhmmer: DNA homology search with profile HMMs

por Wheeler, Travis J., Eddy, Sean R.
Publicado 2013

Skylign: a tool for creating informative, interactive logos representing sequence alignments and profile hidden Markov models

por Wheeler, Travis J, Clements, Jody, Finn, Robert D
Publicado 2014

Transposable element subfamily annotation has a reproducibility problem

por Carey, Kaitlin M., Patterson, Gilia, Wheeler, Travis J.
Publicado 2021

SODA: a TypeScript/JavaScript library for visualizing biological sequence annotation

por Roddy, Jack W, Lesica, George T, Wheeler, Travis J
Publicado 2022

Accuracy of multiple sequence alignment methods in the reconstruction of transposable element families

por Hubley, Robert, Wheeler, Travis J, Smit, Arian F A
Publicado 2022

DISCO: A deep learning ensemble for uncertainty-aware segmentation of acoustic signals

por Colligan, Thomas, Irish, Kayla, Emlen, Douglas J., Wheeler, Travis J.
Publicado 2023

DISCO: A deep learning ensemble for uncertainty-aware segmentation of acoustic signals

por Colligan, Thomas, Irish, Kayla, Emlen, Douglas J., Wheeler, Travis J.
Publicado 2023

The Dfam community resource of transposable element families, sequence models, and genome annotations

por Storer, Jessica, Hubley, Robert, Rosen, Jeb, Wheeler, Travis J., Smit, Arian F.
Publicado 2021

Complete Nucleomorph Genome Sequence of the Nonphotosynthetic Alga Cryptomonas paramecium Reveals a Core Nucleomorph Gene Set

por Tanifuji, Goro, Onodera, Naoko T., Wheeler, Travis J., Dlutek, Marlena, Donaher, Natalie, Archibald, John M.
Publicado 2010

TE Hub: A community-oriented space for sharing and connecting tools, data, resources, and methods for transposable element annotation

por Elliott, Tyler A., Heitkam, Tony, Hubley, Robert, Quesneville, Hadi, Suh, Alexander, Wheeler, Travis J.
Publicado 2021

VIBES: A Workflow for Annotating and Visualizing Viral Sequences Integrated into Bacterial Genomes

por Copeland, Conner J., Roddy, Jack W., Schmidt, Amelia K., Secor, Patrick R., Wheeler, Travis J.
Publicado 2023

Framework of the Alu Subfamily Evolution in the Platyrrhine Three-Family Clade of Cebidae, Callithrichidae, and Aotidae

por Storer, Jessica M., Walker, Jerilyn A., Baker, Jasmine N., Hossain, Shifat, Roos, Christian, Wheeler, Travis J., Batzer, Mark A.
Publicado 2023

HMMER web server: 2015 update

por Finn, Robert D., Clements, Jody, Arndt, William, Miller, Benjamin L., Wheeler, Travis J., Schreiber, Fabian, Bateman, Alex, Eddy, Sean R.
Publicado 2015

Drugsniffer: An Open Source Workflow for Virtually Screening Billions of Molecules for Binding Affinity to Protein Targets

por Venkatraman, Vishwesh, Colligan, Thomas H., Lesica, George T., Olson, Daniel R., Gaiser, Jeremiah, Copeland, Conner J., Wheeler, Travis J., Roy, Amitava
Publicado 2022

Dfam: a database of repetitive DNA based on profile hidden Markov models

por Wheeler, Travis J., Clements, Jody, Eddy, Sean R., Hubley, Robert, Jones, Thomas A., Jurka, Jerzy, Smit, Arian F. A., Finn, Robert D.
Publicado 2013

The Dfam database of repetitive DNA families

por Hubley, Robert, Finn, Robert D., Clements, Jody, Eddy, Sean R., Jones, Thomas A., Bao, Weidong, Smit, Arian F.A., Wheeler, Travis J.
Publicado 2016

A call for benchmarking transposable element annotation methods

por Hoen, Douglas R., Hickey, Glenn, Bourque, Guillaume, Casacuberta, Josep, Cordaux, Richard, Feschotte, Cédric, Fiston-Lavier, Anna-Sophie, Hua-Van, Aurélie, Hubley, Robert, Kapusta, Aurélie, Lerat, Emmanuelle, Maumus, Florian, Pollock, David D., Quesneville, Hadi, Smit, Arian, Wheeler, Travis J., Bureau, Thomas E., Blanchette, Mathieu
Publicado 2015

Pf Bacteriophage and Their Impact on Pseudomonas Virulence, Mammalian Immunity, and Chronic Infections

por Secor, Patrick R., Burgener, Elizabeth B., Kinnersley, M., Jennings, Laura K., Roman-Cruz, Valery, Popescu, Medeea, Van Belleghem, Jonas D., Haddock, Naomi, Copeland, Conner, Michaels, Lia A., de Vries, Christiaan R., Chen, Qingquan, Pourtois, Julie, Wheeler, Travis J., Milla, Carlos E., Bollyky, Paul L.
Publicado 2020