HECIL: A Hybrid Error Correction Algorithm for Long Reads with Iterative Learning
HECIL—Hybrid Error Correction with Iterative Learning—a hybrid error correction framework that determines a correction policy for erroneous long reads, based on optimal combinations of decision...1979 days ago
NxRepair: error correction in de novo assemblies using Nextera Mate Pair Reads
NxRepair is a python module that automatically detects large structural errors in de novo assemblies using...nxrepair aligned_matepairs.bam assemblyfasta.fasta error_locations.csv new_fasta.fasta...1956 days ago
wtdbg2: A fuzzy Bruijn graph approach to long noisy reads assembly
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 builds th...1945 days ago
Seq: A high-performance, Pythonic language for bioinformatics
Seq is a programming language for computational genomics and bioinformatics. With a Python-compatible synta...1653 days ago
Minipolish: A tool for Racon polishing of miniasm assemblies
Miniasm is a great long-read assembly tool: straight-...ude a polishing step, so its assemblies have a high error rate – they are essenti...olishing tool that can be used to clean up assembly errors. It's also very fast and wel...1643 days ago
RePS: Repeat-masked Phrap with scaffolding, a WGS sequence assembler
RePS (Repeat-masked Phrap with scaffolding), a WGS sequence assembler, that explicitl...to the assembly. The established software Phrap is used to compute meaningful error probabilities for each base....1611 days ago
NextDenovo: string graph-based de novo assembler for TGS long reads
NextDenovo is a string graph-based de novo assem...esources and storages. After assembly, the per-base error rate is about 97-98%, to furt...ct TGS long reads with approximately 15% sequencing errors, and NextGraph can be used t...1610 days ago
Π-cyc: A Reference-free SNP Discovery Application using Parallel Graph Search
Reference free SNP search for comparative population genomics: multiple samples run s...f de novo de bruijn graphs assembly using colours can be unpractical for large error prone genomes which makes the...1587 days ago
Rcorrector: efficient and accurate error correction for Illumina RNA-seq reads
Rcorrector has an accuracy higher than or comparable to existing methods, including t...lter; 2-start from dumping kmer counts into a jf_dump file; 3-start from error correction.1579 days ago
Musket - a multistage k-mer spectrum based corrector
Musket is a well-established leading next-generation sequencing read error correction algorithm targetti...consistently one of the top performing substitution-error-based correctors.1579 days ago