nhmmer: DNA homology search with profile HMMs

by Wheeler, Travis J., Eddy, Sean R.
Published 2013

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

by Wheeler, Travis J, Clements, Jody, Finn, Robert D
Published 2014

HMMER web server: 2015 update

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

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

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

The Dfam database of repetitive DNA families

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

A call for benchmarking transposable element annotation methods

by 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
Published 2015