BEAP: Blast Extension and Assembly Program
The Blast Extension and Assembly Program (BEAP) is a computer program that uses a short starting DNA fragment, oft...ssembling the resulting sequences is achieved by using a known genome, such as human g...2168 days ago
P_RNA_scaffolder: a fast and accurate genome scaffolder using paired-end RNA-sequencing reads
P_RNA_scaffolder, a fast and accurate tool using paired-end RNA-sequencing reads to scaffold genomes. This tool ai...rotein-coding and non-coding genes. After this tool was applied to scaffolding human c...2167 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)...on a 32-thread computer with 2.0 GHz CPU , MECAT takes 9.5 days to assemble a human g...2199 days ago
LAMSA: fast split read alignment with long approximate matches
LAMSA (Long Approximate Matches-based Split Aligner) is a novel split alignment approach wit...mp; Yan Gao and developed by Yan Gao in Center for Bioinformatics, Harbin Institute of Technol...2195 days ago
SOAP2 : Short Oligonucleotide Analysis Package 2
SOAPaligner/soap2 is a member of the SOAP (Short Oligonucleotide Analysis Package). It is an updated version of SO...ster. It require only 2 minutes aligning one million single-end reads onto the human r...2187 days ago
WhatsHap: fast and accurate read-based phasing
WhatsHap is a software for phasing genomic variants using DNA sequencing reads, also called r...rarr; AGAA) Pedigree phasing mode uses reads from relat...e requirements (Garg et al., Read-Based Phasing of Related...2182 days ago
minimap2: A versatile pairwise aligner for genomic and spliced nucleotide sequences
git clone https://github.com/lh3/minimap2 cd minimap2 && make # long sequence...s against a reference genome ./minimap2 -a test/MT-human.fa test/MT-orang.fa > test...reate an index first and then map ./minimap2 -d MT-human.m...2159 days ago
Hercules: a profile HMM-based hybrid error correction algorithm for long reads
Choosing whether to use second or third generation sequencing p...ues and do not take the error profile of the underlying technology into account. Memory- an...two DNA-seq BAC clones (CH17-157L1 and CH17-227A2), and human b...2097 days ago
CoLoRMap: Correcting Long Reads by Mapping short reads
Second generation sequencing technologies paved the way to an exceptional increase in the nu...method for correcting noisy long reads, such as the ones produced by PacBio sequencing technol...2097 days ago
LRCstats: a tool for evaluating long reads correction methods
LRCstats is an open-source pipeline for benchmarking DNA long read c...thms for long reads outputted by third generation sequencing techn...osciences. The reads produced by third generation sequencing technol...2096 days ago