Results for "De Bruijn graph"
Blogs
Five unique traits of effective computational biologist
Bioinformatics research is driven by large set of software, scripts, and tools to ana...r to interact with biotech researchers and learn how do they explain their one graph (which they generally produce...3993 days ago
Five points for bioinformatics software/tools
In the bioinformatics sector we mostly spend time on computational analysis of huge a...at you need in your analysis is already coded into the program. Need to plot a graph? Just click this button right...3750 days ago
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Bookmarks
Bioinformatics algorithms tutorials
Useful bioinformatics tutorial, such as De Bruijn Graphs for NGS AssemblyAlgorithms for PacBio ReadsSoftware and Hardware Concepts for BioinformaticsFinding us in Homolog.us (Search Alg...3646 days ago
InfoGenomeR: Integrative reconstruction of cancer genome karyotypes
InfoGenomeR is the Integrative Framework for Genome Reconstruction that uses a breakpoint graph to model the connectivity amo...type information to identify the optimal breakpoint graph representing cancer genomes....1139 days ago
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Files
Prepare for Coding Interview !
This is a comprehensive guide to prepare for your next coding interview. It's great f...view_experience_at_google/ #bottom-comments. 1. Data structures 2. Trees and Graph algorithms 3. Dynamic Progra...888 days ago
Pages
Genome Assembly Tools and Software - PART2 !!
...ories: string-based model and graph-based model. We therefore lis...scovery. SAGE – String Graph Assembly of GEnomesSAGE i...dwidth paths in weighted read graphs and frequency estimation via...BA / IDBA-UD 1.1.1 – De Bruijn Graph De Novo Assembler with...2728 days ago
Awesome perl frameworks, libraries and software - PART 2
licheng/gccfilter - gccfilter is a pe...l-GD - Perl GD module for bitmap graphics keiya/KeiSpade-CMS -...n terms of AnyEvent agentzh/makefile-graphviz-pm - Perl CPAN module...nbsp;- MySQL stats logging for Statsd/Graphite naoya/hadoop-streaming-fr...2537 days ago
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Top-level pages
- Data mining, the extraction of hidden predictive informati...t be your strong point. Excel is fine for creating graphs. If you’re serious abo...age informatics and scalable querying and mining of graphs.For more detail visit: ...
3989 days ago
- An algorithm is a computable set of steps to achieve a des...amic programming The shortest path in a weighted graph can be found by using the sho...many problems such as the maximum flow for directed graphs, notably by using the simple...
3989 days ago
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Wire posts
News
BEReX : Biomedical Entity-Relation eXplorer
BEReX is a new biomedical knowledge integration, search, and exploration tool. BEReX...keywords and BEReX returns a sub-network matching the keywords. The resulting graph can be explored interactively...3882 days ago
- ...When Scalpel assembles an exon, it collects reads that map to that exon (including partial matches), splits them into k-mers, and creates a de Bruijn graph to span the exon; however, if...
3589 days ago
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Opportunity posts
Post-doc position at LABGeM - Evry, France
The LABGeM team (CEA/Genoscope, CNRS UMR 8030, France, Dir. Claudine Médigue) is deve...nd enzyme families. These methods will be based on protein family analysis and graph approaches combining genomic...3111 days ago
11th International Joint Conference on Biomedical Engineering Systems and Technologies
BIOSTEC, the 11th International Joint Conference on Biomedical Engineering Systems an...systems biology, sequence analysis, biostatistics, image analysis, network and graph models, scientific data manag...2692 days ago
ResearchLabs posts
- Nataša Pržulj Lab's research involves applications of graph theory, mathematical modeling, and computational techniques to solving large-scale problems in computational and systems biology.They...
3944 days ago
- Complex networks and network mining: developing graph theoretic, mathematical, and computational algorithms for efficient extraction of function from topology of complex real-world networks,...
3944 days ago
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Video
Computational Biology in the 21st Century: Making Sense out of Massive Data
Computational Biology in the 21st Century: Making Sense out of Massive Data...algorithms. We show how ideas from cutting-edge algorithms, including spectral graph theory and modern data struct...3945 days ago
Bio-Scripts
- # Count k-mer occurrence using Jellyfish 2.2.6 jellyfish count -t 8 -C -m 19 -s 5G -o 19mer_out --min-qual-char=? sread_1.fastq sread_2.fastq # points for a histogram jellyfish histo -o 19mer_out.histo 19mer_out #Plot results using R ##load the data into dataframe19 dataframe19
2307 days ago
Estimate Genome Size with Jellyfish and R
jellyfish count -t 8 -C -m 19 -s 5G -o 19mer_out --min-qual-char=? /common/Tutorial/Genome_estimation/sample_read_1.fastq /common/Tutorial/Genome_estimation/sample_rea...2289 days ago
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Comments
Comment on "Sibelia: A comparative genomics tool"
...e 2. Dot file with resulting de Bruijn graph All these files are describ...the computation. Resulting de Bruijn graph ------------------------- F...ormed with the genome behind the graph model. Suppose that somewhe...--------------- In "Sibelia" de Bruijn graph is constructed (N + 1)...1328 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 ass...
2387 days ago
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