LoRDEC: a hybrid error correction program for long, PacBio reads
...igh error rate, and is especially intended for PacBio reads. It uses a hybrid strat...ose error rate is assumed to be small, and the PacBio read set, which is then corre...orrection, a larger portion of the sequence of PacBio reads is usable for detection...2574 days ago
A Post-assembly genome-improvement toolkit (PAGIT) to obtain annotated genomes from contigs
...nce to be corrected by iteratively mapping reads to the current assembly. An improved version, especially correction Pacfic Bioscience assemblies (PacBio) can be found here. RAT...2542 days ago
GraphMap - A highly sensitive and accurate mapper for long, error-prone reads
...o genome assembly project called Ra (https://github.com/mariokostelac/ra-integrate).Ra attempts to create de novo assemblies from raw nanopore and PacBio reads without requiring error...2516 days ago
Unicycler: Hybrid assembly pipeline for bacterial genomes
...ial genomes. It can assemble Illumina-only read sets where it functions as a SPAdes-optimiser. It can also assembly long-read-only sets (PacBio or Nanopore) where...2360 days ago
miniasm: very fast OLC-based de novo assembler for noisy long reads
...t stage. It has only been tested on a dozen of PacBio and Oxford Nanopore (ONT) bac...default setting, miniasm assembles 9 out of 12 PacBio datasets and 3 out of 4 ONT d...is possible to generate long contigs from raw PacBio or ONT reads without error co...2343 days ago
2327 days ago
Jabba: Hybrid Error Correction for Long Sequencing Reads
Jabba is a hybrid error correction tool to correct third generation (PacBio / ONT) sequencing data, using se...ld be in fasta or fastq format. These sequences will be corrected (e.g. PacBio reads). The corrections will...1973 days ago
proovread : large-scale high-accuracy PacBio correction through iterative short read consensus
proovread : large-scale high-accuracy PacBio correction through iterative short read consensus outperforms PacBioToCA/LSC in terms of accuracy..... proovread maps high coverage data to pacbio reads (bwa mem, blasr, dalign...2304 days ago
NGMLR: long-read mapper designed to align PacBio or Oxford Nanopore
CoNvex Gap-cost alignMents for Long Reads (ngmlr) is a long-read mapper designed to sensitively align PacBilo or Oxford Nanopore to (large) reference genomes. It was de...2194 days ago
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 betw...2184 days ago