Fatemeh Almodaresi

Publication Activity (10 Years)

Years Active: 2017-2022
Publications (10 Years): 10

Top Topics

High Scalability

Color Information

Search Strategies

Top Venues

J. Comput. Biol.

Publications

Fatemeh Almodaresi, Jamshed Khan, Sergey Madaminov, Michael Ferdman, Rob Johnson, Prashant Pandey, Rob Patro
An incrementally updatable and scalable system for large-scale sequence search using the Bentley-Saxe transformation. Bioinform. 38 (12) (2022)
Fatemeh Almodaresi, Mohsen Zakeri, Rob Patro
PuffAligner: a fast, efficient and accurate aligner based on the Pufferfish index. Bioinform. 37 (22) (2021)
Fatemeh Almodaresi, Prashant Pandey, Michael Ferdman, Rob Johnson, Rob Patro
An Efficient, Scalable, and Exact Representation of High-Dimensional Color Information Enabled Using de Bruijn Graph Search. J. Comput. Biol. 27 (4) (2020)
Fatemeh Almodaresi, Prashant Pandey, Michael Ferdman, Rob Johnson, Rob Patro
An Efficient, Scalable and Exact Representation of High-Dimensional Color Information Enabled via de Bruijn Graph Search. RECOMB (2019)
Prashant Pandey, Fatemeh Almodaresi, Michael A. Bender, Michael Ferdman, Rob Johnson, Rob Patro
Mantis: A Fast, Small, and Exact Large-Scale Sequence-Search Index. RECOMB (2018)
Laraib Malik, Fatemeh Almodaresi, Rob Patro
Grouper: graph-based clustering and annotation for improved de novo transcriptome analysis. Bioinform. 34 (19) (2018)
Fatemeh Almodaresi, Hirak Sarkar, Avi Srivastava, Rob Patro
A space and time-efficient index for the compacted colored de Bruijn graph. Bioinform. 34 (13) (2018)
Mohsen Zakeri, Avi Srivastava, Fatemeh Almodaresi, Rob Patro
Improved data-driven likelihood factorizations for transcript abundance estimation. Bioinform. 33 (14) (2017)
Fatemeh Almodaresi, Prashant Pandey, Rob Patro
Rainbowfish: A Succinct Colored de Bruijn Graph Representation. WABI (2017)
Fatemeh Almodaresi, Lyle H. Ungar, Vivek Kulkarni, Mohsen Zakeri, Salvatore Giorgi, H. Andrew Schwartz
On the Distribution of Lexical Features at Multiple Levels of Analysis. ACL (2) (2017)