xmatchview: smith-waterman alignment visualization
xmatchview and xmatchview-conifer are imaging tools for comparing the synteny between DNA sequences. It allows users...1994) http://www.phrap.org) uses an implementation of the Smith-Waterman algorithm...2339 days ago
JPred4: A Protein Secondary Structure Prediction Server
JPred4 (http://www.compbio.dundee.ac.uk/jpred4) is the latest version of the popular JPred protein secondary structure prediction server which provides predictions by the JNet algorithm, one of the most accurate methods for secondary structure prediction.2338 days ago
ECTOOLS: Long Read Correction and other Correction tools
Long Read Correction and other Correction tools This package is a loose collection of sc...tact: gurtowsk@cshl.edu In short, the correction algorithm takes as input the unitigs fr...ng read data. More background information for the algorithm...2332 days ago
LRCstats: Long Read Correction Statistics
LRCstats is an open-source pipeline for benchmarking DNA long read correction algorithms for long reads outputted by third genera...downstream analysis. Long read correction algorithms reduce the error rate of lon...ds. Of course, some long read correction algorithm...2332 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 neighboring...2270 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...2229 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 Oxfo...imate mapping locations for a read and then a banded Smith-Waterman alignment algorithm...2222 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...2212 days ago
Scallop: reference-based transcriptome assembler for RNA-seq
Scallop is an accurate reference-based transcript assembler. Scallop features its high accuracy in assembling multi-e...owly expressed transcripts. Scallop achieves this improvement through a novel algorithm...2209 days ago
Metassembler: merging and optimizing de novo genome assemblies
Metassembler combines multiple whole genome de novo assemblies into a combined consensus...Genome assembly projects typically run multiple algorithms in an attempt to find the si...ngths and weaknesses. We present our metassembler algorithm...2209 days ago