Results for "Graph Mining"
Top-level pages
Genome Assembly Tools and Software - PART1 !!
The genome assemblers generally take a file of short sequence rea...protein-coding genes using a graph structure combining both de B...adopts multi-step bi-directed graph (MSG). With MSG, the standard...mbly, homology-guided overlap graph construction, and careful gra...sembly via Succinct de Bruijn graph...2700 days ago
Awesome perl frameworks, libraries and software - PART 1
A curated list of awesome Perl frameworks, libraries and software. maj...itoring MySQL servers rizen/Facebook-Graph - A perl module to help...igate the intricacies of the Facebook Graph API. lhost/sendxmpp - p...tg - MRTG - Multi Router Traffic Graphe...2504 days ago
- When you have both Illumina and Nanopore data, then SPAdes remains a good option for hybrid assembly - SPAdes was...use 4 threads max memory is 32Gb use 3 kmer values to build the de bruijn graph(...
2365 days ago
Run miniasm assembler on nanopore reads !
Miniasm is a very fast OLC-based de novo assembler for noisy long reads. It takes all-vs-all read self-mappings (typically by minimap) as input and outputs an assembly graph...2344 days ago
List of visualization tools for network biology
...stem, dynamic and hierarchical graph. https://gephi.org Igraph Collection of network analys...al data http://tinyurl.com/yEdGraph/ Web tools for network analy...em for managing, comparing and mining multiple networks http://tyn...VisANT Visualization, mining, analysis and modeling of bio...2302 days ago
List of visualization tools for genome alignments
Genome browsers are useful not only for showing final results but also for improving analysis protocols, test...on of results: ABySS Explorer Interactive Java application that uses a novel graph-...2298 days ago
Some useful Bioinformatics links
Reference-free prediction of rearrangement breakpoint reads | Bioinformatics | Oxford...brc.jp/alignment/software/tips.html Omega | Overlap-graph de novo Assembler for Metagen...sensitive mapping of nanopore sequencing reads with GraphM...2256 days ago
Bioinformatics tools for genome assembly !
There are numerous genome assembly tools available, each with its strengths and...embler for large genomes that uses de Bruijn graphs. Velvet: Another de Bruijn graph-based assembler optimized for...al genome assembly. wtdbg2: A de Bruijn graph...300 days ago
Mitochondrial genome assembly tools !
Mitochondrial genome assembly tools are specialized software and algorithms designed to accurately reconstruct the...ar mitochondrial DNA sequences (numts). IDBA-UD: IDBA-UD (Iterative De Bruijn Graph...257 days ago
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