Results for "de Bruijn"
Top-level pages
Useful Publications and Websites for Deep Sequencing Data Analysis
...edvedev et al., Bioinformatics 27(13):i137-41, 2011. PubMedCentral De novo assembly Velvet: algorithms for de novo short read assembly using de Bruijn graphs. Zerbino & Birney,...3780 days ago
Commercial and public next-gen-seq (NGS) software
...l. Linux/Win. EULER-SR - Short read de novo assembly. By Mark J. Chaisson and Pavel A. Pevzner from UCSD (published in Genome Research). Uses a de Bruijn graph approach. MIRA2 - MIRA...3519 days ago
Software packages for next gen sequence analysis
...Linux/Win. * EULER-SR - Short read de novo assembly. By Mark J. Chaisson and Pavel A. Pevzner from UCSD (published in Genome Research). Uses a de Bruijn graph approach. * MIRA2 - MIR...3243 days ago
List of Bioinformatics Software Tools for Next Generation Sequencing
...NP detection “2kplus2.cpp is a c++ source code for the detection and the classification of single nucleotide polymorphisms in transformed De Bruijn graphs using Cortex assembler...2909 days ago
Genome Assembly Tools and Software - PART1 !!
...graph structure combining both de Bruijn graphs and protein HMMs. The...a. Intend of using traditional de Bruijn Graph, SWAP-Assembler adopts...hort-read Assembler based on a de Bruijn graph Minia is a short-rea...genomics Assembly via Succinct de Bruijn graph MEGAHIT is a single...2686 days ago
Alignment-free sequence comparison tools available for next-generation sequencing data analysis
...ecific mutations; algorithm uses k-mers and is based on colored de Bruijn graphs) Software (Python) h...ome sequences and the distances between them based on assembly using de Bruijn graphs and Bray–Curtis...2371 days ago
- ....fastq \ -o hybrid_assembly In turn, these parameters mean use 4 threads max memory is 32Gb use 3 kmer values to build the de bruijn graph(s) - 31, 51 and 71 onl...
2351 days ago
Bioinformatics tools for genome assembly !
...BySS: A parallelized assembler for large genomes that uses de Bruijn graphs. Velvet: Another de Bruijn graph-based assembler optimiz...ads for circular bacterial genome assembly. wtdbg2: A de Bruijn graph assembler for long read...286 days ago
Mitochondrial genome assembly tools !
...embly, especially when dealing with complex datasets that may contain nuclear mitochondrial DNA sequences (numts). IDBA-UD: IDBA-UD (Iterative De Bruijn Graph De Novo Assembler) is a...243 days ago
