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 a...analysis that you are doing. This is particularly true in the case of genome assembly and annotation. At the end,...3700 days ago
Dynamic chromosome breakpoints !!!
Cell division involves the distribution of identical genetic material, DNA, to two da...on process. This is followed by nuclear envelope dissolution, mitotic spindle assembly, migration of the sister chro...3545 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 Gopal3902 days ago
Next Generation Sequencing (NGS) Tutorials
Institute of computational biomedicine, Cornell University provide an NGS workshop tu...cument/pub?id=1ZRzrjjOCvtAu3m-IKL-rbJ1f4On60dDL_IEwG7oejdI Microbial de novo Assembly for Illumina Data Introductor...3480 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 w...ated from these samples mapped to Sus Scrofa version 10.2 reference assembly using Bowtie2. Alignment file...3782 days ago
- Saved Cornell University assembly workshop PPT. Reference: http://cbsu.tc.cornell.edu/lab/doc/assembly_workshop_20150420_lecture1.pdf
2789 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?
3937 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...3912 days ago
Pages
Bio++ : C Language libraries for your biological need
C has always been a language that never attempts to tie a...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...3940 days ago
Genome Assembly Tools and Software - PART2 !!
...and removes them prior to the assembly. The established software Phr...nbsp;is a method for accurate assembly of a heterogeneous viral popu...ntial to perform high-quality de-novo assembly of large genomes in r...o use for your Velvet de novo assembly. It needs two inputs: the est...2678 days ago
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Top-level pages
- "Bioinformatics is a science of biological predictions and analysis" -- Jitendra...h;1351R.D. Fleischmann et al. (1995) Whole–genome random sequencing and assembly of haemophilus–influenz...
3939 days ago
- Genomics is the study of the genomes of organisms. The field includes intensive effor...Package consists of a series of tools for DNA sequence preparation (pregap4), assembly (gap4), editing (gap4) and DN...
3934 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 am...expected to revolutionize area of life sciences. A number of new methods like de-novo...3837 days ago
- A team from Cold Spring Harbor Laboratory ha...pel works by performing de novo assembly of regions of interest, so th...nnovation is to repeatedly check its assembly before comparing to the refer...minated. This ensures that the final assembly of the exon is highly accurat...
3538 days ago
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Opportunity posts
- INDIAN INSTITUTE OF SPICES RESEARCH (Indian Council of Agricultural Research) Marikunnu P.O., Kozhikode – 673 012, Kerala Walk- in- Test cum Interview (based on tes...
3635 days ago
Bioinformatics JRF/SRF position at IARI
DIVISION OF NEMATOLOGY INDIAN AGRICULTURAL RESEARCH INSTITUTE NEW DELHI 110012 App...ogramming language, perl and database – HTML, CSS, Java script. NGS sequence assembly and analysis and algorithm de...3523 days ago
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ResearchLabs posts
- Efflux pumps (RND family) Functioning of efflux systems in Gram-negative bacteria...lux systems Structural and dynamical features of the efflux systems TatA Assembly of the TatA system Study of...
3861 days ago
- The laboratory is focused on the discovery and analysis of structural variation (SVs)...which detects SVs by evaluating gapped sequence alignments; and (iv) sequence assembly, which enables the discovery...
2985 days ago
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Video
How DNA is Packaged (Advanced)
Each chromosome consists of one continuous thread-like molecule of DNA coiled tightly...htly packed up to fit into the nucleus of every cell. The process starts with assembly of a nucleosome, which is for...3869 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"}...2524 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"}...2515 days ago
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Polls
Which of the following programming language is best for a bioinformatics beginner?
...h 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...3523 days ago
Groups
Our research interest falls in the broad field of bioinformatics and, m...sampling for motif finding Biclustering algorithms Genome Assembly Developement of new algorithms to speed up the assembly procedure Comparative genomi...3935 days ago
Comments
Comment on "Short-read assembly using Spades !"
Short-read assembly is the process of constructin...software tool for short-read assembly. Here are the general steps for short-read assembly using SPAdes: Quality co...repeated until a satisfactory assembly is achieved. These are t...408 days ago
Comment on "Short-read assembly using Spades !"
SPAdes (St. Petersburg g...er) is a popular tool for short-read assembly. It can assemble reads genera...of how to use SPAdes for short-read assembly: Install SPAdes: SPAdes...vides several options for tuning the assembly parameters, such as adjusting...413 days ago
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