Fatemeh Almodaresi
Fatemeh Almodaresi
Verified email at oicr.on.ca - Homepage
Title
Cited by
Cited by
Year
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
692018
Rainbowfish: a succinct colored de Bruijn graph representation
F Almodaresi, P Pandey, R Patro
17th International Workshop on Algorithms in Bioinformatics (WABI 2017), 2017
602017
Alignment and mapping methodology influence transcript abundance estimation
A Srivastava, L Malik, H Sarkar, M Zakeri, F Almodaresi, C Soneson, ...
Genome biology 21 (1), 1-29, 2020
412020
A space and time-efficient index for the compacted colored de Bruijn graph
F Almodaresi, H Sarkar, A Srivastava, R Patro
Bioinformatics 34 (13), i169-i177, 2018
39*2018
An efficient, scalable, and exact representation of high-dimensional color information enabled using de bruijn graph search
F Almodaresi, P Pandey, M Ferdman, R Johnson, R Patro
Journal of Computational Biology 27 (4), 485-499, 2020
232020
Improved data-driven likelihood factorizations for transcript abundance estimation
M Zakeri, A Srivastava, F Almodaresi, R Patro
Bioinformatics 33 (14), i142-i151, 2017
212017
Grouper: graph-based clustering and annotation for improved de novo transcriptome analysis
L Malik, F Almodaresi, R Patro
Bioinformatics 34 (19), 3265-3272, 2018
92018
On the distribution of lexical features at multiple levels of analysis
F Almodaresi, L Ungar, V Kulkarni, M Zakeri, S Giorgi, HA Schwartz
Proceedings of the 55th Annual Meeting of the Association for Computational …, 2017
6*2017
Puffaligner: A Fast, Efficient, and Accurate Aligner Based on the Pufferfish Index
F Almodaresi, M Zakeri, R Patro
Bioinformatics, 2021
2*2021
An Incrementally Updatable and Scalable System for Large-Scale Sequence Search using LSM Trees
F Almodaresi, J Khan, S Madaminov, P Pandey, M Ferdman, R Johnson, ...
bioRxiv, 2021
12021
Algorithms and Data Structures for Indexing, Querying, and Analyzing Large Collections of Sequencing Data in the Presence or Absence of a Reference
F Almodaresi
PQDT-UK & Ireland, 2020
2020
Supplementary Material for:“An incrementally-updatable and scalable system for large-scale sequence search using LSM-trees”
F Almodaresi, J Khan, S Madaminov, P Pandey, M Ferdman, R Johnson, ...
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