Results for "de novo assembly"
Blogs
Five points for bioinformatics software/tools
In the bioinformatics sector we mostly spend time on computational analysis of huge...f analysis that you are doing. This is particularly true in the case of genome assembly and annotation. At the end,...3705 days ago
Dynamic chromosome breakpoints !!!
Cell division involves the distribution of identical genetic material, DNA, to two...ion process. This is followed by nuclear envelope dissolution, mitotic spindle assembly, migration of the sister chro...3550 days ago
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Bookmarks
Comparison of Short Read De Novo Alignment Algorithms
Excellent article to introduce different sequencing methods along with tools for de novo assembly of sequencing reads and their relevant references. Title: Comparison of Short Read De Novo Alignment Algorithms Author: Nikhil Gopal3908 days ago
Next Generation Sequencing (NGS) Tutorials
...xM Variant Detection Introductory tutorial https://docs.google.com/document/pub?id=1ZRzrjjOCvtAu3m-IKL-rbJ1f4On60dDL_IEwG7oejdI Microbial de novo Assembly for Illumina Data Introductor...3485 days ago
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Files
Bioinformatics approach to Boar Taint
Meat products obtained from intact male pigs often produce offensive smell or odour...rated from these samples mapped to Sus Scrofa version 10.2 reference assembly using Bowtie2. Alignment file...3787 days ago
- Saved Cornell University assembly workshop PPT. Reference: http://cbsu.tc.cornell.edu/lab/doc/assembly_workshop_20150420_lecture1.pdf
2795 days ago
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Discussion topics
- Like in case of plant genomes where nature of genome is too complex and huge in size to accomplish complete de novo assembly by current sequencing technology. What would be alternate solution? Can we live in reference free world?
3943 days ago
Want to Know which genome assembler rule the world ?
Assemblathon 2: evaluating de novo methods of genome assembly http://www.gigasciencejournal.com/content/2/1/10/abstract http://blogs.nature.com/news/2013/07/genome-assembly-contest-prompts-soul-searchin...3918 days ago
Pages
Bio++ : C Language libraries for your biological need
C has always been a language that never attempts to tie...l features that would otherwise require the use of Assembly Language. As Dennis Ritchie...plementation language efficient enough to displace assembly language, yet sufficiently ab...3946 days ago
Genome Assembly Tools and Software - PART2 !!
...string-overlap graph-based de novo genome assembler. Omega 1.0.2 &n...nbsp;is a method for accurate assembly of a heterogeneous viral popu...es. Fermi 1.1 – WGS de novo Assembler based on the FMD-index...o use for your Velvet de novo assembly. It needs two inputs: the est...2684 days ago
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Top-level pages
- "Bioinformatics is a science of biological predictions and analysis" -- Jitend...sh;1351R.D. Fleischmann et al. (1995) Whole–genome random sequencing and assembly of haemophilus–influenz...
3945 days ago
- Genomics is the study of the genomes of organisms. The field includes intensive eff...Package consists of a series of tools for DNA sequence preparation (pregap4), assembly (gap4), editing (gap4) and DN...
3940 days ago
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Wire posts
News
Accelerating Biology 2014:The Next Wave (18-22 February, 2014)
New advances in biology are being made at a rapidly increasing pace, largely due to new technologies and a large...pected to revolutionize area of life sciences. A number of new methods like de-novo seq...3843 days ago
- ...del callers, Scalpel works by performing de novo assembly of regions of interest, so th...pel's innovation is to repeatedly check its assembly before comparing to the refer...are eliminated. This ensures that the final assembly of the exon is highly accurat...
3544 days ago
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Opportunity posts
- INDIAN INSTITUTE OF SPICES RESEARCH (Indian Council of Agricultural Research) Marikunnu P.O., Kozhikode – 673 0...he quality of data and filtering of raw reads. 3. Assembling the raw reads-de novo as...
3641 days ago
Bioinformatics JRF/SRF position at IARI
DIVISION OF NEMATOLOGY INDIAN AGRICULTURAL RESEARCH INSTITUTE NEW DELHI 110012 A...rogramming language, perl and database – HTML, CSS, Java script. NGS sequence assembly and analysis and algorithm de...3529 days ago
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ResearchLabs posts
- Efflux pumps (RND family) Functioning of efflux systems in Gram-negative bacteri...flux systems Structural and dynamical features of the efflux systems TatA Assembly of the TatA system Study of...
3867 days ago
- The laboratory is focused on the discovery and analysis of structural variation (SV...which detects SVs by evaluating gapped sequence alignments; and (iv) sequence assembly, which enables the discovery...
2991 days ago
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Video
How DNA is Packaged (Advanced)
Each chromosome consists of one continuous thread-like molecule of DNA coiled tight...ghtly packed up to fit into the nucleus of every cell. The process starts with assembly of a nucleosome, which is for...3875 days ago
Bio-Scripts
Download the genome from NCBI using bash script/command
...d genome # Look for genome assembly summary and extract the URL....nih.gov/genomes/refseq/fungi/assembly_summary.txt' | awk '{FS="\t"}....gov/genomes/genbank/bacteria/assembly_summary.txt' | awk '{FS="\t"}...h.gov/genomes/refseq/protozoa/assembly_summary.txt' | awk '{FS="\t"}...2530 days ago
Download the gff files from NCBI using bash script/command
...nome_gff # Look for genome assembly summary and extract the URL....nih.gov/genomes/refseq/fungi/assembly_summary.txt' | awk '{FS="\t"}....gov/genomes/genbank/bacteria/assembly_summary.txt' | awk '{FS="\t"}...h.gov/genomes/refseq/protozoa/assembly_summary.txt' | awk '{FS="\t"}...2521 days ago
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Polls
Which of the following programming language is best for a bioinformatics beginner?
...work and I will like to learn a programming language which is compatible with most bioinformatics tools or software. I basically want to do de-novo assembly, map reads, align reads, and...3529 days ago
Groups
Our research interest falls in the broad field of bioinformatics and...sampling for motif finding Biclustering algorithms Genome Assembly Developement of new algorithms to speed up the assembly procedure Comparative genomi...3941 days ago
Tags
Comparison of Short Read De Novo Alignment Algorithms
Excellent article to introduce different sequencing methods along with tools for de novo assembly of sequencing reads and their relevant references. Title: Comparison of Short Read De Novo Alignment Algorithms Author: Nikhil GopalTags: Sequencing, assembly, de novo assembly, velvet
3908 days ago
Comments
- Canu is one of the best de novo assemblers available for long r...can turn this off. However, large assembly jobs are best run in parallel...-assemble] \ [-s <assembly-specifications-file>] \...-assemble - generate an assembly -trim-assemble - generat...
2173 days ago
Comment on "Genome Assembly Tutorial"
This totorial is also very informative http://www.imperial.ac.uk/bioinformatics-data-science-group/resources/software/next-generation-sequencing-ngs-software/de-novo-assembly/2691 days ago
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