Rob Patro
Rob Patro
Associate Professor, Department of Computer Science, University of Maryland
Verified email at cs.umd.edu - Homepage
Title
Cited by
Cited by
Year
Salmon provides fast and bias-aware quantification of transcript expression
R Patro, G Duggal, MI Love, RA Irizarry, C Kingsford
Nature methods 14 (4), 417-419, 2017
17702017
Sailfish enables alignment-free isoform quantification from RNA-seq reads using lightweight algorithms
R Patro, SM Mount, C Kingsford
Nature biotechnology 32 (5), 462-464, 2014
5072014
TransRate: reference-free quality assessment of de novo transcriptome assemblies
R Smith-Unna, C Boursnell, R Patro, JM Hibberd, S Kelly
Genome research 26 (8), 1134-1144, 2016
3302016
Bioconda: sustainable and comprehensive software distribution for the life sciences
B Grüning, R Dale, A Sjödin, BA Chapman, J Rowe, CH Tomkins-Tinch, ...
Nature methods 15 (7), 475-476, 2018
2342018
Global network alignment using multiscale spectral signatures
R Patro, C Kingsford
Bioinformatics 28 (23), 3105-3114, 2012
1622012
Identification of alternative topological domains in chromatin
D Filippova, R Patro, G Duggal, C Kingsford
Algorithms for Molecular Biology 9 (1), 14, 2014
1552014
RapMap: a rapid, sensitive and accurate tool for mapping RNA-seq reads to transcriptomes
A Srivastava, H Sarkar, N Gupta, R Patro
Bioinformatics 32 (12), i192-i200, 2016
702016
A general-purpose counting filter: Making every bit count
P Pandey, MA Bender, R Johnson, R Patro
Proceedings of the 2017 ACM international conference on Management of Data …, 2017
672017
Reference-based compression of short-read sequences using path encoding
C Kingsford, R Patro
Bioinformatics 31 (12), 1920-1928, 2015
472015
Salmon provides accurate, fast, and bias-aware transcript expression estimates using dual-phase inference
R Patro, G Duggal, MI Love, RA Irizarry, C Kingsford
bioRxiv, 021592, 2016
402016
Mantis: A fast, small, and exact large-scale sequence-search index
P Pandey, F Almodaresi, MA Bender, M Ferdman, R Johnson, R Patro
Cell systems 7 (2), 201-207. e4, 2018
382018
Swimming downstream: statistical analysis of differential transcript usage following Salmon quantification
MI Love, C Soneson, R Patro
F1000Research 7, 2018
372018
Rainbowfish: a succinct colored de Bruijn graph representation
F Almodaresi, P Pandey, R Patro
17th International Workshop on Algorithms in Bioinformatics (WABI 2017), 2017
362017
Squeakr: an exact and approximate k-mer counting system
P Pandey, MA Bender, R Johnson, R Patro
Bioinformatics 34 (4), 568-575, 2018
352018
Data-dependent bucketing improves reference-free compression of sequencing reads
R Patro, C Kingsford
Bioinformatics 31 (17), 2770-2777, 2015
352015
A robust and rotationally invariant local surface descriptor with applications to non-local mesh processing
A Maximo, R Patro, A Varshney, R Farias
Graphical Models 73 (5), 231-242, 2011
322011
AtRTD – a comprehensive reference transcript dataset resource for accurate quantification of transcript‐specific expression in Arabidopsis thaliana
R Zhang, CPG Calixto, NA Tzioutziou, AB James, CG Simpson, W Guo, ...
New Phytologist 208 (1), 96-101, 2015
292015
Alevin efficiently estimates accurate gene abundances from dscRNA-seq data
A Srivastava, L Malik, T Smith, I Sudbery, R Patro
Genome biology 20 (1), 1-16, 2019
242019
Predicting protein interactions via parsimonious network history inference
R Patro, C Kingsford
Bioinformatics 29 (13), i237-i246, 2013
222013
Parsimonious reconstruction of network evolution
R Patro, E Sefer, J Malin, G Marçais, S Navlakha, C Kingsford
Algorithms for Molecular Biology 7 (1), 25, 2012
212012
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