ECTOOLS: Long Read Correction and other Correction tools
...m of this file. Contact: gurtowsk@cshl.edu In short, the correction algorithm takes as input the unitigs fr...s them to correct long read data. More background information for the algorithm can be found:http://schatzlab...2310 days ago
LRCstats: Long Read Correction Statistics
...ne for benchmarking DNA long read correction algorithms for long reads outputted by...in downstream analysis. Long read correction algorithms reduce the error rate of lon...reads. Of course, some long read correction algorithms are better than others, and...2310 days ago
Reference-free prediction of rearrangement breakpoint reads
lideSort-BPR ( b reak p oint r eads) is based on a fast algorithm for all-against-all comparisons of short reads and theoretical analyses of the number of...2248 days ago
AlignGraph: algorithm for secondary de novo genome assembly guided by closely related references
AlignGraph is a software that extends and joins contigs or scaffolds by reassembling them with help provided by a reference genome of a closely related organism. Using...2207 days ago
NGMLR: long-read mapper designed to align PacBio or Oxford Nanopore
...ural variations. Ngmlr uses an SV aware k-mer search to find approximate mapping locations for a read and then a banded Smith-Waterman alignment algorithm to compute the final alignmen...2200 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 betwe...2190 days ago
Scallop: reference-based transcriptome assembler for RNA-seq
...its high accuracy in assembling multi-exon transcripts as well as lowly expressed transcripts. Scallop achieves this improvement through a novel algorithm that can be proved preserving...2187 days ago
Metassembler: merging and optimizing de novo genome assemblies
...dividual assemblies. Genome assembly projects typically run multiple algorithms in an attempt to find the si...y, if untapped, strengths and weaknesses. We present our metassembler algorithm that merges multiple assembli...2187 days ago
MIX: Combining multiple assemblies from NGS data
...contig fragmentation and thus speed-up genome finishing. The proposed algorithm builds an extension graph whe...extension graph that maximizes the cumulative contig length. The Mix algorithm, approach and results were pu...2187 days ago
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