1612 days ago
Rcorrector: efficient and accurate error correction for Illumina RNA-seq reads
Rcorrector has an accuracy higher than or comparable to existing...(SEECER) designed for RNA-seq reads, and is more time and memory...ory footprint for 100 million reads, it can be run on virtually a...lt: ./) -t INT: number of threads to use (default: 1) -trim :...-stdout: output the corrected reads t...1610 days ago
QuorUM: An Error Corrector for Illumina Reads
We produce trimmed and error-corrected reads that result in assemblies with longer contigs and fewer errors. We compared QuorUM against several published error correctors an...1610 days ago
Tadpole: an assembler, error-corrector, and read-extender
Tadpole is a kmer-based assembler, with additional capabilities of error-correcting and extending reads. It does not do any complicat...caffolding. To error-correct reads:tadpole.sh in=reads.fq out=co...50bp in each direction:tadpole.sh in=reads.f...1610 days ago
MEC: Contig Misassembly Correction
MEC, to identify and correct misassemblies in contigs. Firstly, MEC takes fragment coverage as the feature to dete...tives from the candidate misassemblies based on the distribution of paired-end reads a...1610 days ago
1608 days ago
Deepbinner: a signal-level demultiplexer for Oxford Nanopore reads
Deepbinner is a tool for demultiplexing barcoded Oxford Nanopore sequencing reads. It does this with a deep convolutional neural network classifier,...squiggle) which gives it greater sensitivity and fewer unclassified reads.1605 days ago
SLR-superscaffolder: A scaffold assemble pipeline for stLFR reads.
This is a scaffold assembler designed for stLFR reads[1]. It uses the link-reads information from stLFR reads to assemble contigs to scaffolds. Here is an illustration of this pipeline:1601 days ago
CLARK: Fast, accurate and versatile sequence classification system
CLARK, a method based on a supervised sequence classification using discriminative k-mers. Considering two di...e article for details), namely (1) the taxonomic classification of metagenomic reads t...1600 days ago
LoFreq*: A sequence-quality aware, ultra-sensitive variant caller for NGS data
LoFreq* (i.e. LoFreq version 2) is a fast and sensitive variant-caller for inferring...f base-call qualities and other sources of errors inherent in sequencing (e.g. mapping or base/indel alignment uncer...1597 days ago