Results for "Coverage"
Blogs
Computer simulation of genetic mechanism !!
...ve on the very diverse simulation tools that already exist, but focuses on mechanistic, dynamic models. Similarly, it is not meant to provide any coverage of the breadth of application...2975 days ago
Structural variation: the hidden genomic treasure
...ow be accurately assessed. Besides various methods of detection in next generation sequencing data (paired end mapping, split reads, and depth of coverage), array-based approaches have...2703 days ago
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Bookmarks
Simons Genome Diversity Project
Complete genome sequences from more than one hundred diverse human populations All genomes in the dataset were sequenced to at least 30x coverage using Illumina technology. The sequen...1093 days ago
- ...uracy of Centurion in identifying known centromere locations from high coverage Hi-C data of budding yeast an...aria parasite. We then use two metagenomic samples with relatively low coverage Hi-C data to infer centromere...
3006 days ago
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Files
Bioinformatics approach to Boar Taint
...d boar taint levels were done in Illumina HiSeq2000 to >10X average coverage. Short reads generated from t...of SNPs was prepared after filtering SNPs on the basis of SNP quality, coverage of SNP allele, functional and...3790 days ago
Pages
Genome Assembly Tools and Software - PART2 !!
...the ground up with scalability in mind. It can assemble large and high-coverage genomes from fastq files in a...that PASHA is able to produce better assemblies with comparable genome coverage and mis-assembly rates compar...2686 days ago
Awesome perl frameworks, libraries and software - PART 3
...ing/munin - Main repository for munin master / node / plugins theory/sqitch - Sane database change management jonreid/XcodeCoverage - Code coverage for Xcode projects dalibo/pg...2495 days ago
Top-level pages
Useful Publications and Websites for Deep Sequencing Data Analysis
...t sequencing data. Ilie et al, Bioinformatics 27(3):295, 2011 Full Text Error correction of high-throughput sequencing datasets with non-uniform coverage. Medvedev et al., Bioinformat...3780 days ago
Next generation sequencing in R or bioconductor environment
...ng exercise for an example of using rtracklayer to visualize alignment coverage. Documentation biomaRt The...peaks with the BayesPeak package as well as the incorporation of read coverage information obtained by the c...3625 days ago
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Wire posts
News
- ...sequence tens of thousands of samples annually with high-quality, high-coverage sequencing, delivering a comp...ing the throughput to sequence tens of thousands of high-quality, high-coverage genomes per year. Illumina sa...
3763 days ago
- ...ols contains useful modules to process the mapped reads data to create coverage files in standard bedGraph an...file formats. By doing so, deepTools allows the creation of normalized coverage files or the comparison betwe...
3466 days ago
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Opportunity posts
Research & Development - Informatics Officer
Research & Development - Informatics Officer Centre for Innovative and Applied Bioprocessing - Mohali, Punjab (Area Coverage: Database and Research Analysis, Documentation, Resea...3081 days ago
ResearchLabs posts
- ...n abnormally mapped pairs of clone ends; (ii) read-depth analysis, which detects deletions and duplications through analysis of the read depth-of-coverage; (iii) split read analysis, w...
2993 days ago
Bio-Scripts
- # get total number of bases covered at MIN_COVERAGE_DEPTH or higher samtools mpileup mapping_result_sorted.bam | awk -v X="${MIN_COVERAGE_DEPTH}" '$4>=X' | wc -l 3287...
2210 days ago
- ...rmalization --------------------- -- (Removing Excess Reads Beyond 50 Coverage -- -------------------------...be/Tools/trinityrnaseq-Trinity-v2.6.6/util/..//Inchworm/bin/fastaToKmerCoverageStats --reads left.fa --kmers...
2128 days ago
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Tags
Hagfish - assess an assembly through creative use of coverage plots
Hagfish is a tool that is to be used in data analysis of Next Generation Sequencing (NGS) experiments. Hagfish builds on the concept of coverage plots and aims to assist (amongst others) in quality control of de novo genome assembly or identification of structural variation in a genome ...Tags: Bioinformatics, Hagfish, Assess, Assembly, Coverage, Plots, NGS, Structure, Variation, SV, Assembly, Genome
2907 days ago
CovCal: Coverage / Read Count Calculator
Coverage / Read Count Calculator Calculate how much sequencing you need to hit a target depth of coverage (or vice versa). Instructions: set the read length/configuration and genome size, then select what you want to calculate. Written by Stephen Turner, based on the Lander-Waterman formula, i...Tags: Bioinformatics, covcal, Tool, Coverage, Reads, Sequencing
2166 days ago
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Comments
- ...at generates synthetic reads based on the whole genome sequencing technology. It can simulate reads with different read lengths, error rates, and coverage levels. The wgsim tool is als...
416 days ago
Comment on "CovCal: Coverage / Read Count Calculator"
Sequencing coverage is defined as the average num...me. Estimating the sequencing coverage is very important when you are simulating datasets. The coverage equation is defined as follow...bp), then we will get a sequencing coverage of 20x as follows....584 days ago
- +11 more Comments
