Results for "mapping"
Blogs
Tools to detect synteny blocks regions among multiple genomes
...ki/index.php/SynMap), SyMAP (http://www.symapdb.org/) SyMAP (Synteny Mapping and Analysis Program) v4.0 is...some formulas, a suitable image of syntenic relationships or physical mapping can be obtained. http://www.a...2608 days ago
Structural variation: the hidden genomic treasure
...us methods of detection in next generation sequencing data (paired end mapping, split reads, and depth of co...ls CNVnatora tool for CNV discovery and genotyping from depth of read mapping.2011a,2011b AGEa tools that...2701 days ago
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Bookmarks
Next Generation Sequencing (NGS) Tutorials
...8/2/284?etoc RseqFlow: Workflows for RNA-Seq data analysis DOI: 10.1093/bioinformatics/btr441 ngs_backbone: a pipeline for read cleaning, mapping and SNP calling using Next Ge...3485 days ago
Latest paper on comparison of mapping tools
...D. Bozdag, A. E. Toland, U. V. Catalyurek "Benchmarking short sequence mapping tools" BMC Bioinformatics, 14...http://bioinformatics.oxfordjournals.org/content/28/24/3169 Some new Mapping tool links: GSNAP http://re...3895 days ago
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Files
Bioinformatics approach to Boar Taint
...ple population for validation and then used for constructing SNPs haplotypes in close linkage disequilibrium with QTLs and fine mapping of QTLs through association mapping of genotyped SNPs. &nb...3787 days ago
- ...ding to measure theory) which measures the randomness. Randomness is the object to be measured by probability. For example, probability is a mapping from randomness to the real n...
1612 days ago
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Pages
Bio++ : C Language libraries for your biological need
...ular evolution tools Parameter estimation under maximum likelihood.Ancestral states reconstructions: Marginal likelihood.(Weighted) substitution mapping.Sequences simulation under an...3946 days ago
Genome Assembly Tools and Software - PART2 !!
...s. RMAP 2.1 – Short-read MappingRMAP is aimed to map accu...reads or bisulfite-treated reads mapping. There is no limitaions on re...ge contains programs that support mapping of reads to a reference genom...t. IMAGE 2.4.1 – Iterative Mapping and Assembly for Gap Eliminat...2684 days ago
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Top-level pages
- ...sequence of organisms and fine-scale genetic mapping efforts. The field also inclu...established techniques of sequencing, genome mapping, data storage, and bioinforma...ver beer at a meeting held in Maryland on the mapping of the human genome in 1986.T...
3940 days ago
Bioinformatics Courses Around the World
...matiikka/mbi/ DEGREE: Ph.D program in computational biology, bioinformatics, and biometryhttp://www.cs.helsinki.fi/combi/ Human Genome Mapping Project Resource Centre ...3941 days ago
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Wire posts
News
- ...m/science/your-cat-ferocious-tigers-share-lot-95-6-percent-their-4B11182690 http://timesofindia.indiatimes.com/home/environment/flora-fauna/Gene-mapping-of-tiger-completed/articlesho...
3880 days ago
Scientists map 17,294 proteins produced in human body
...ss spectrometry-based analysis of human tissues, body fluids and cells mapping the large majority of the hum...was sequenced around the turn of the millennium, this is an equivalent mapping of the human proteome.The res...3627 days ago
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Opportunity posts
Ph.D. Fellowship (Computational Biology/Bioinformatics) : Cork, Ireland : Cork, Ireland
...Bioinformatics resources for the analysis and visualization of ribosome profiling data. Ribosome profiling (ribo-seq) is a technology that allows mapping positions of the ribosomes on...3914 days ago
Research Fellow @ Mendel laboratory
...e of hot applications and projects, dealing with microarrays, RNA-Seq and miRNA-Seq data. Main activities will be: (i) data analysis (short-reads mapping, variants call and annotation...3811 days ago
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ResearchLabs posts
- ...orking in the areas of statistical genetics, bioinformatics and population genetics. Her main area of research is linkage mapping, in humans and mice. Research Area: Mapping loci in ENU mutants in mice i...
3946 days ago
- ...tionally we provide databases and applications supporting the international animal science community, particularly tools and resources for genome mapping. Head: Andy Law. Members:...
3811 days ago
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Video
- ...al genes. In 1980, Botstein and three colleagues proposed a method for mapping human genes that laid the groundwork for the Human Genome Project. The basic principle of the mapping scheme was to develop, by rec...
3871 days ago
Dr. Ken Buetow: IS & Personalized Medicine Lecture-Part 1
...rlying complex traits. The laboratory was instrumental in the earliest studies developing and applying linkage disequilibrium methods as genetic mapping tools. The laboratory also d...3868 days ago
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Bio-Scripts
Create genome scaffolding with Perl
#!/usr/bin/perl use warnings; use strict; use English; use Pod::Usage; ## uses pod documentation in usage code use Getopt::Long qw(:config auto_version auto_he...2306 days ago
Mapping with BWA-mem or BWA-sampe in one go with python script !
BAM files and mapping BESST requires sorted and indexed BAM files as input. Any read aligner +...indexed BAM files with BWA-mem or BWA-sampe in one go. An example call for mapping with this script is python...2122 days ago
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Tags
Frequent Paired-end reads (PE 2x100) mapping command lines
bowtie2 -x hs37m -X 650 -q -1 r1.fq -2 r2.fq -S r12.bowtie2.sam bwa aln hs37m.fa r1.fq > r1.sai && bwa aln hs37m.fa r2.fq > r2.sai \ && bwa sampe hs37m r1.sai r2.sai r1.fq r2.fq > r12.bwa.sam bwa bwasw ../index/bwa/hs37m.fa r12.fq > r12.bwasw.sam ...Tags: Frequent, Paired-end, reads, (PE 2x100), mapping, command, lines
2180 days ago
Comments
Comment on "URMAP, an ultra-fast read mapper"
...e -threads option specifies the number of processor threads to use for mapping. Default is the number of CPU...or 10, whichever is smaller. The -veryfast option specifies a variant mapping algorithm which is ~3x faster...1281 days ago
Comment on "REAPR: a universal tool for genome assembly evaluation"
...vily based on too low span coverage, or reads mapping too far or too close to each...to get information on how to create a perfect mapping file, and create a perfect ma...ap which creates a bam file of read-pair mappings. Do the same thing you did w...1335 days ago
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