NextSV: a meta-caller for structural variants from low-coverage long-read sequencing data
NextSV, a meta SV caller and a computational pipeline to perform SV calling from low coverage long-read sequencing data. NextSV integrates three aligners and three SV callers and gen...2155 days ago
AlignQC: A tool for assessing an alignment, and generating reports that are easy to share
Long read alignment analysis. Generate a reports on sequence alignments for mappability vs read sizes, error patterns, annotations and rarefraction curve analysis. The...2155 days ago
FMLRC: a long-read error correction tool using the multi-string Burrows Wheeler Transform
FMLRC, or FM-index Long Read Corrector, is a tool for performing hybrid correction of long read sequencing using the BWT...s an implicit de Bruijn graph. Each long read is then corrected indepe...hod with both a short "k-mer" and a longer "K-mer". This allows FMLRC...2151 days ago
NanoPack: visualizing and processing long-read sequencing data
The NanoPack tools are written in Python3 and released under the GNU GPL3.0 License. The source code can be found at https://github.com/wdecoster/nanopack, togeth...2151 days ago
FinisherSC:a repeat-aware tool for upgrading de novo assembly using long reads
Here is the command to run the tool: python finisherSC.py destinedFolder mummerPath If you are running on server computer and would like to use multiple threads, t...2142 days ago
Hercules: a profile HMM-based hybrid error correction algorithm for long reads
...ad length. Several studies require long and accurate reads including...echnologies and the more erroneous long reads are corrected using the..., the first machine learning-based long read error correction algorit...cy when most of the basepairs of a long read are covered with short r...2141 days ago
CoLoRMap: Correcting Long Reads by Mapping short reads
...agmented assemblies. The recent developments in long reads sequencing methods offe...sing way to address this issue. However, so far long reads are characterized by a...CoLoRMap, a hybrid method for correcting noisy long reads, such as the ones produ...2141 days ago
LRCstats: a tool for evaluating long reads correction methods
...open-source pipeline for benchmarking DNA long read correction algorithms for long reads outputted by third gene...ing technology, as the name suggests, are longer in length than reads produc...can cause issues in downstream analysis. Long read correction algorithms re...2139 days ago
STELLAR: fast and exact local alignments
STELLAR is very practical and fast on very long sequences which makes it a suitable new tool for finding local alignments between genomic sequences under the edit distance model. Binaries are freely available for Linux, Windows, and Mac OS X at http://www.seqan.de/projects/stellar.2132 days ago
LoRMA: A tool for correcting sequencing errors in long reads
An error correction method that uses long reads only. The method consists of two p...the corrected reads are further polished using long-distance dependencies that ar...osed method is the most accurate one relying on long reads only for read sets with...2124 days ago