Results for "Graph"
Comments
Comment on "Sibelia: A comparative genomics tool"
...ces file 2. Dot file with resulting de Bruijn graph All these files are descri...s down the computation. Resulting de Bruijn graph ------------------------- F...actually performed with the genome behind the graph model. Suppose that somewhe...1275 days ago
Comment on "KAT: a K-mer analysis toolkit to quality control NGS datasets and genome assemblies"
...the kmer “noise” is part of the final assembly? What do you think contamination would look like in the kmer plot? What can the kmer graph tell you about the ploidy of...1327 days ago
Comment on "Estimate Genome Size"
...ounts -C -s 10000000000 -U 500 -t 30 /dev/fd/0 # generate a histogram jellyfish histo fastq.counts_0 > fastq.counts_0.histo # generate a pdf graph of the histogram jellyplot.p...1888 days ago
Comment on "Run miniasm assembler on nanopore reads !"
...hits remain after cut[M::ma_hit_contained::149.341*1.00] 18263 sequences and 142921 hits remain after containment removal[M::main] ===> Step 4: graph cleaning <===[M::ma_sg_gen...2271 days ago
Comment on "GraphMap - A highly sensitive and accurate mapper for long, error-prone reads"
urbe@urbo214b[genome] graphmap align -h []GraphMap - A very accurate and sens...e Sikic and Niranjan NagarajanGraphMap is licensed under The MIT...s FASTQ or FASTA files. gfa - Graphical Fragment Assembly format....Algorithmic options: -k INT Graph construction kmer size. [6] -...2282 days ago
- Common usage SPAdes: de Bruijn graph based assembler The last assembler we will run is SPAdes. SPAdes is different from the other assemblers in that it generates a final...
2334 days ago
Comment on "Structural variation: the hidden genomic treasure"
...are suite. A high-speed next-gen sequencing structural variation caller. GRIDSS calls variants based on alignment-guided positional de Bruijn graph break-end assembly, split rea...2692 days ago
- ...e. First, it constructs contigs using the algorithm based on de Bruijn graph. Second, the order of contigs...------ Constructs contigs using the algorithm based on de Bruign graph. INPUT OPTIONS...
2789 days ago
- ...maps and renders a wide variety of biological data on relevant pathway graphs. All users need is to supply...pecify the target pathway. Pathview automatically downloads the pathway graph data, parses the data file, m...
3026 days ago
Comment on "Bioinformatics Algorithm Demonstrations and Tutorials"
Application of graph theory algorithm for rapid protein side-chain prediction http://www.ncbi.nlm.nih.gov/pubmed/129309993697 days ago
