2198 days ago
Many-to-many pairwise alignments of two sequence sets
needleall reads a set of input sequences and compares them all to one or more sequences, writing their optimal global sequence alignments to file. It uses the Needleman-Wun...2191 days ago
MECAT: fast mapping, error correction, and de novo assembly for single-molecule sequencing reads
MECAT is an ultra-fast Mapping, Error Correction and de novo Assembly Tools for single molecula sequencing (SMRT) reads. MECAT employs novel alignmen...2230 days ago
GAPPadder: A Sensitive Approach for Closing Gaps on Draft Genomes with Short Sequence Reads
This software is provided ``as is” without warranty of any kind. In no event sh...der: A Sensitive Approach for Closing Gaps on Draft Genomes with Short Sequence Reads." bioRxiv (2017): 125534.2227 days ago
2227 days ago
2226 days ago
LAMSA: fast split read alignment with long approximate matches
...Long Approximate Matches-based Split Aligner) is a novel split alignment approach with faste...t is well-suited to align long reads (over thousands of base-pairs...tegy. That is, LAMSA initially splits the read into relatively lon...ynamic programming (SDP)-based split alignment approach to handle...2226 days ago
HapCUT2: robust and accurate haplotype assembly for diverse sequencing technologies
HapCUT2 is a maximum-likelihood-based tool...sembling haplotypes from DNA sequence reads, designed to "just work" with...ding but not limited to: NGS short reads (Illumina HiSeq) clone-based...SMRT reads (PacBio) Oxford Nanopore reads 10X Genomics Linked-Reads p...2226 days ago
TULIP - The Uncorrected Long read Integration Pipeline
TULIP currently consists of two Perl scripts, tulipseed.perl and tulipbulb.perl. Thes...ions are likely to follow. Tulipseed takes as input alignments files of long reads to sparse short seeds, and ou...2226 days ago
Circlator: automated circularization of genome assemblies using long sequencing reads
A tool to circularize genome assemblies. The algorithm and benchmarks are described i...Circlator: automated circularization of genome assemblies using long sequencing reads", Hunt et al, Genome Biology...2226 days ago