Results for "depth"
Blogs
How to Prepare your Bioinformatics CV ?
...ery brief mention as to your college or schooling. If you are just commencing your working life, having previously been a student, provide more in depth knowledge regarding your acad...3427 days ago
Structural variation: the hidden genomic treasure
...n next generation sequencing data (paired end mapping, split reads, and depth of coverage), array-based app...ocumented. Tools CNVnatora tool for CNV discovery and genotyping from depth of read mapping.2011a,2011b...2756 days ago
- +3 more Blogs
Bookmarks
- HiCdat: a fast and easy-to-use Hi-C data analysis tool HiCdat is easy-to-use and provides solutions starting from aligned reads up to in-depth analyses. Importantly, HiCdat is focus...
3059 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 genom...2220 days ago
- +19 more Bookmarks
Pages
Genome Assembly Tools and Software - PART2 !!
...ds from the massively parallel sequencing platforms. IDBA / IDBA-UD 1.1.1 – De Bruijn Graph De Novo Assembler with Highly Uneven Sequencing Depth IDBA is a practical...2739 days ago
Awesome perl frameworks, libraries and software - PART 4
...n. Alpha. SethRobertson/git-what-branch - Discover what branch a commit is on, or how it got to a named branch shabble/irssi-docs - In-depth documentation of the Irssi IR...2548 days ago
Top-level pages
List of In-silico Binding Site Prediction Tools
...bio-iitd.res.in/dock/ActiveSite_new.jsp Active Site Prediction of Protein server computes the cavities in a given protein. DEPTH: http://mspc.bii.a-star.edu.sg/tankp/run_depth.html Depth measures the close...3798 days ago
Commercial and public next-gen-seq (NGS) software
...rowsing and analysis of genome sequence data. LookSeq supports multiple sequencing technologies, alignment sources, and viewing modes; low or high-depth read pileups; and easy visual...3573 days ago
- +9 more Top-level pages
Wire posts
Opportunity posts
Postodoc in Computational/Systems Biology and Machine Learning
...isorders. You have a PhD in Computational Science, Bioinformatics, or equivalent. Especially relevant skills for the profile are: 1. In-depth understanding and implementat...3732 days ago
Opening for RA/extended SRF in Bioinformatics project by DBT at Bose Institute
...(IGCS) for Biomolecular Modeling, Molecular Dynamics & Structures” Desired Profile : Ph.D degree in Biological or Chemical Sciences with in-depth understanding of protein stru...3407 days ago
- +6 more Opportunity posts
ResearchLabs posts
- ...air analysis) based on 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...
3046 days ago
Video
How to sequence the human genome - Mark J. Kiel
...sts are now able to know the sequence of letters that makes up an individual genome relatively quickly and inexpensively. Mark J. Kiel takes an in-depth look at the science behind th...3681 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 32876 #...
2263 days ago
- ...Analysis: Tools that count coverage, e.g. depth per allele ASEReadCounte...bam) with pair orientation fields (e.g. F1R2 ). AnnotateVcfWithBamDepth (Interna...
2129 days ago
- +6 more Bio-Scripts
Tags
mosdepth: fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing
mosdepth can output: per-base depth about 2x as fast samtools depth--about 25 minutes of CPU time for a 30X genome.mean per-window depth given a window size--as would be used for CNV calling.the mean per-region given a BED file of regions.a distribution of proportion of bases covered at or above...Tags: mosdepth, fast, BAM, CRAM, depth, calculation, WGS, exome, target, sequencing
1685 days ago
SeQuiLa-cov: A fast and scalable library for depth of coverage calculations
The Docker image is available at https://hub.docker.com/r/biodatageeks/. Supplementary information on benchmarking procedure as well as test data are publicly accessible at the project documentation site http://biodatageeks.org/sequila/benchmarking/benchmarking.html#depth-of-coverage. A...Tags: SeQuiLa-cov, fast, scalable, library, depth, coverage, calculations
1657 days ago
Comments
- ...files. HTML reports are generated as output. RSeQC RSeQC analyzes diverse aspects of RNA-Seq experiments: sequence quality, sequencing depth, strand specificity, GC bias,...
2191 days ago
Comment on "Does anyone have Nanopore latest updates?"
92% genome coverage of E. coli, average depth of 3.8x. But from just _43_ reads https://github.com/nickloman/massive-nanopore-silliness http://lab.loman.net/2017/03/09/ultrareads-for-nanopore/2606 days ago
- +3 more Comments
