Thomas D. Otto

According to our database, Thomas D. Otto authored at least 16 papers between 2003 and 2023.

Collaborative distances:

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

2023

From contigs towards chromosomes: automatic improvement of long read assemblies (ILRA).

José Luis Ruiz, Susanne Reimering, Juan David Escobar-Prieto, Nicolas M. B. Brancucci, Diego F. Echeverry, Abdirahman I Abdi, Matthias Marti, Elena Gómez-Díaz, Thomas D. Otto

Briefings Bioinform., July, 2023

peaks2utr: a robust Python tool for the annotation of 3′ UTRs.

William Haese-Hill, Kathryn Crouch, Thomas D. Otto

Bioinform., March, 2023

2022

Using topic modeling to detect cellular crosstalk in scRNA-seq.

Alexandrina Pancheva, Helen Wheadon, Simon Rogers, Thomas D. Otto

PLoS Comput. Biol., 2022

Varia: a tool for prediction, analysis and visualisation of variable genes.

Gavin Mackenzie, Rasmus W. Jensen, Thomas Lavstsen, Thomas D. Otto

BMC Bioinform., 2022

2016

Companion: a web server for annotation and analysis of parasite genomes.

Sascha Steinbiss, Fatima Silva-Franco, Brian P. Brunk, Bernardo Foth, Christiane Hertz-Fowler, Matthew Berriman, Thomas D. Otto

Nucleic Acids Res., 2016

2015

IVA: accurate <i>de novo</i> assembly of RNA virus genomes.

Martin Hunt, Astrid Gall, Swee Hoe Ong, Jacqui Brener, Bridget Ferns, Philip J. R. Goulder, Eleni Nastouli, Jacqueline A. Keane, Paul Kellam, Thomas D. Otto

Bioinform., 2015

2013

BamView: visualizing and interpretation of next-generation sequencing read alignments.

Tim Carver, Simon R. Harris, Thomas D. Otto, Matthew Berriman, Julian Parkhill, Jacqueline A. McQuillan

Briefings Bioinform., 2013

2012

Design and Implementation of ProteinWorldDB.

Sérgio Lifschitz, Carlos Juliano M. Viana, Cristian Tristão, Marcos Catanho, Wim M. Degrave, Antonio Basílio de Miranda, Márcia Bezerra, Thomas D. Otto

Proceedings of the Advances in Bioinformatics and Computational Biology, 2012

2010

Iterative Correction of Reference Nucleotides (iCORN) using second generation sequencing technology.

Thomas D. Otto, Mandy Sanders, Matthew Berriman, Chris Newbold

Bioinform., 2010

ProteinWorldDB: querying radical pairwise alignments among protein sets from complete genomes.

Thomas D. Otto, Marcos Catanho, Cristian Tristão, Márcia Bezerra, Renan Mathias Fernandes, Guilherme Steinberger Elias, Alexandre Capeletto Scaglia, Bill Bovermann, Viktors Berstis, Sérgio Lifschitz, Antonio Basílio de Miranda, Wim M. Degrave

Bioinform., 2010

BamView: viewing mapped read alignment data in the context of the reference sequence.

Tim Carver, Ulrike Böhme, Thomas D. Otto, Julian Parkhill, Matthew Berriman

Bioinform., 2010

2009

ABACAS: algorithm-based automatic contiguation of assembled sequences.

Samuel A. Assefa, Thomas M. Keane, Thomas D. Otto, Chris Newbold, Matthew Berriman

Bioinform., 2009

2008

AnEnPi: identification and annotation of analogous enzymes.

Thomas D. Otto, Ana Carolina R. Guimarães, Wim M. Degrave, Antonio Basílio de Miranda

BMC Bioinform., 2008

ReRep: Computational detection of repetitive sequences in genome survey sequences (GSS).

Thomas D. Otto, Leonardo H. F. Gomes, Marcelo Alves-Ferreira, Antonio Basílio de Miranda, Wim M. Degrave

BMC Bioinform., 2008

2007

Efficient algorithms for finding sills in digital topographic maps.

Thomas D. Otto, Andreas M. Thurnherr

Comput. Geosci., 2007

2003

Model-Free Functional MRI Analysis Using Topographic Independent Component Analysis.

Anke Meyer-Bäse, Thomas D. Otto, Thomas Martinetz, Dorothee Auer, Axel Wismüller

Proceedings of the 11th European Symposium on Artificial Neural Networks, 2003