HISAT2: a fast and sensitive alignment program for mapping next-generation sequencing reads
HISAT2 is a fast and sensitive alignment program for mapping next-ge...(both DNA and RNA) to a population of human genomes (as well as to a sing...index that represents a population of human genomes, HISAT2 uses a large...th 55,000 indexes needed to cover the human popu...2226 days ago
CrossMap: a program for convenient conversion of genome coordinates
CrossMap is a program for convenient conversion of genome coordinates (or annotation files) between different assemblies (such as Human hg18...2203 days ago
2203 days ago
BEAP: Blast Extension and Assembly Program
The Blast Extension and Assembly Program (BEAP) is a computer program that uses a short starting DNA fragment, of...sembling the resulting sequences is achieved by using a known genome, such as human geno...2192 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 a...otein-coding and non-coding genes. After this tool was applied to scaffolding human cont...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)...on a 32-thread computer with 2.0 GHz CPU , MECAT takes 9.5 days to assemble a human geno...2223 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 S...ter. It require only 2 minutes aligning one million single-end reads onto the human refe...2211 days ago
minimap2: A versatile pairwise aligner for genomic and spliced nucleotide sequences
git clone https://github.com/lh3/minimap2 cd minimap2 && make # long sequenc...against a reference genome ./minimap2 -a test/MT-human.fa test/MT-orang.fa > test...eate an index first and then map ./minimap2 -d MT-human.mmi...2183 days ago
Hercules: a profile HMM-based hybrid error correction algorithm for long reads
Choosing whether to use second or third generation sequencing platforms can lead to trade-offs between accuracy a.... Using datasets from two DNA-seq BAC clones (CH17-157L1 and CH17-227A2), and human brai...2121 days ago
2105 days ago