Search Results for author:
Found 5 papers, 5 papers with code
RawHash: Enabling Fast and Accurate Real-Time Analysis of Raw Nanopore Signals for Large Genomes
An important feature of nanopore sequencing, Read Until, can eject strands from sequencers without fully sequencing them, which provides opportunities to computationally reduce the sequencing time and cost.
TargetCall: Eliminating the Wasted Computation in Basecalling via Pre-Basecalling Filtering
However, for many applications, the majority of reads do no match the reference genome of interest (i. e., target reference) and thus are discarded in later steps in the genomics pipeline, wasting the basecalling computation.
ApHMM: Accelerating Profile Hidden Markov Models for Fast and Energy-Efficient Genome Analysis
When we analyze the state-of-the-art works, we find that there is a pressing need for a flexible, high-performant, and energy-efficient hardware-software co-design to efficiently and effectively solve all the major inefficiencies in the Baum-Welch algorithm for pHMMs.
FastRemap: A Tool for Quickly Remapping Reads between Genome Assemblies
Also available in Bioconda at: https://anaconda. org/bioconda/fastremap-bio.
AirLift: A Fast and Comprehensive Technique for Remapping Alignments between Reference Genomes
There are several tools that attempt to accelerate the process of updating a read data set from one reference to another (i. e., remapping).
