PRICE (Paired-Read Iterative Contig Extension), a de novo genome assembler implemented in C++.
...ease PRICE (Paired-Read Iterative Contig Extension), a de novo genome assembler implemented in C++. Its name...a, or contigs that were output from a prior run of PRICE or any other assembler. http://derisilab.ucsf.edu...2158 days ago
Hapsembler: An Assembler for Highly Polymorphic Genomes
Hapsembler is a haplotype-specific genome assembly toolkit that is designed for genomes that are rich in SNPs and other types of polymorphism. Hapsembler can be used to assemble reads from a variety of platforms including Illumina and Roche/454. http://compbio.cs.toronto.edu/hapsembler/2178 days ago
EvidentialGene: tr2aacds, mRNA Transcript Assembly Software
...e then to apply biological criteria to pick out the best ones. Don't be misled by the "right number" of transcripts that one or other transcript assembler may produce. It is the "right...2045 days ago
BASE: a practical de novo assembler for large genomes using long NGS reads
new de novo assembler called BASE. It enhances the classic seed-extension approach by indexing the reads efficiently to generate adaptive seeds that have high probability...2028 days ago
Wtdbg2: a de novo sequence assembler for long noisy reads produced by PacBio or Oxford Nanopore
Wtdbg2 is a de novo sequence assembler for long noisy reads produced by PacBio or Oxford Nanopore Technologies (ONT). It assembles raw reads without error correction and then...2027 days ago
SKESA: strategic k-mer extension for scrupulous assemblies
SKESA is a DeBruijn graph-based de-novo assembler designed for assembling reads of microbial genomes sequenced using Illumina. Comparison with SPAdes and MegaHit shows that SKESA produ...2002 days ago
2002 days ago
Genome assembly tutorial "Genome Assembly for short and long reads"
...At the end of the lab you will know: How to perform basic quality checks on the input data How to run a short read assembler on Illumina data How to run a long read assembler on Pacific Biosciences or Oxf...1935 days ago
SvABA: Genome-wide detection of structural variants and indels by local assembly
...variants in sequencing data using genome-wide local assembly. Under the hood, SvABA uses a custom implementation of SGA (String Graph Assembler) by Jared Simpson, and B...1933 days ago
1933 days ago