Flye: Fast and accurate de novo assembler for single molecule sequencing reads
Flye is a de novo assembler for long and noisy reads, such as those produced by PacBio and Oxford Nanopore Technologies. The algorithm uses an A-Bruijn graph to find the overlaps between...2187 days ago
PRICE (Paired-Read Iterative Contig Extension), a de novo genome assembler implemented in C++.
...f existing contigs. Initially, those contigs can be individual reads from a subset of the paired-read dataset, non-paired reads from sequencing technologies that provide non-paired data,...2149 days ago
HapCUT2: robust and accurate haplotype assembly for diverse sequencing technologies
...y methods are specialized for specific read technologies or protocols, with slow or in...peed and accuracy across diverse sequencing technologies, including but not limited to...cing (>40x coverage-per-SNP) using above technologies combinations of the above te...2176 days ago
Hercules: a profile HMM-based hybrid error correction algorithm for long reads
...al variation detection. In such cases researchers often combine both technologies and the more erroneous long r...tential to achieve better and more accurate integration of these two technologies. Results: We designed and dev...2079 days ago
CoLoRMap: Correcting Long Reads by Mapping short reads
Second generation sequencing technologies paved the way to an exceptional increase in the number of sequenced genomes, both prokaryotic and eukaryotic. However, short reads are difficul...2079 days ago
LRCstats: a tool for evaluating long reads correction methods
...e longer in length than reads produced by next generation sequencing technologies, such as those produced by Il...using accurate, short reads outputted by next generation sequencing technologies to correct long reads....2077 days ago
2063 days ago
Wtdbg2: a de novo sequence assembler for long noisy reads produced by PacBio or Oxford Nanopore
Wtdbg2 is a de novo sequence assembler for long noisy reads produced by PacBio or Oxford Nanopore Technologies (ONT). It assembles raw reads without error correction and then b...2019 days ago
COSINE: non-seeding method for mapping long noisy sequences
Third generation sequencing (TGS) are highly promising technologies but the long and noisy reads from TGS are difficult to align using existing algorithms. Here, we present COSINE, a conceptually new method designed specifically for aligning long reads contaminated by a high level of errors.2013 days ago
Referee: Genome assembly quality scores
Modern genome sequencing technologies provide a succint measure of quality at each position in every read, however all of this information is lost in the assembly process. Referee sum...2003 days ago