2510 days ago
Meraculous: De Novo Genome Assembly with Short Paired-End Reads
...new algorithm, meraculous, for whole genome assembly of deep paired-end short reads, and apply it to the as...he dataset, avoiding an explicit error correction step as used in other short-read assemblers. A novel memo...2375 days ago
QuorUM: An Error Corrector for Illumina Reads
Illumina Sequencing data can provide high coverage of a genome by relatively short (most often 100 bp to 150 bp) reads at a low cost. Even with low (advertised 1%) error rate, 100 &t...2374 days ago
2362 days ago
Taxoblast : Taxoblast is a pipeline to identify contamination in genomic sequence
...tion of contaminating sequences in the published genome of the kelp Saccharina japonica. Analyses were based on multiple blastn searches with short sequence fragments. They reve...2359 days ago
TULIP - The Uncorrected Long read Itegration Pipeline
...pes, and additional components and/or implementations are likely to follow. Tulipseed takes as input alignments files of long reads to sparse short seeds, and outputs a graph an...2359 days ago
RITA: Rapid identification of high-confidence taxonomic assignments for metagenomic data
...y predictions from BLAST or UBLAST with compositional classifications from a Naive Bayes classifier, RITA is able to achieve very high accuracy on short reads. Unlike other hybrid ap...2355 days ago
Ribbon: Visualizing complex genome alignments and structural variation:
Ribbon can be used for long reads, short reads, paired-end reads, and assembly/genome alignments. Instructions for each data format are available by clicking on "instructions" in eac...2353 days ago
2326 days ago
ECTOOLS: Long Read Correction and other Correction tools
...scriptsare at the bottom of this file. Contact: gurtowsk@cshl.edu In short, the correction algorithm takes as input the unitigs from a short read assembly and uses them t...2316 days ago