Results for "long reads"
Blogs
Five unique traits of effective computational biologist
Bioinformatics research is driven by large set of software, scripts, and tools to analyse gigantic biological data...he underlying system to look for other clues and solutions, and learn to take a long...3962 days ago
Tools to detect synteny blocks regions among multiple genomes
The synteny block (which etymologically means “on the same ribbon”) is a collection of contiguous gene...ingle genes, or areas devoid of known genes to be considers as synteny block as long...2622 days ago
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Bookmarks
Nucl2Vec: Local alignment of DNA sequences using Distributed Vector Representation
We demonstrate a novel approach forlocal alignment of DNA reads with respect to reference genome.For this process we have used Skip-gram model for creatingencoding(Nucl2Vec) and k-nearest neighbor...1158 days ago
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 Gopal3922 days ago
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Files
Bioinformatics approach to Boar Taint
...with reduced boar taint levels. Resequencing of a total of 47 samples belong to Norwegian Landrace (NL) an...vels were done in Illumina HiSeq2000 to >10X average coverage. Short reads generated from these samples...3801 days ago
Bioinformatics definitions and applications !!!
There have been long discussion amongst several specialized/expert educator regarding bioinformatics arena, but everyone explain bioinformatics with their own view. I tried to explain it with a cartoon. Hope you all will like it.3899 days ago
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Pages
Bio++ : C Language libraries for your biological need
C has always been a language that never attempts to tie a programmer down - it allows for easy implementation, it...C++ libraries of biology. These library are designed in order to reduce the C++ long...3959 days ago
Monitor running jobs on Linux server
You as a bioinformatican run lots of program on your servers. Sometime the shared serv...u need to find out if things are still running, how long they’ve been running, o...0.00The first line tells you the current time, how long...3632 days ago
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Top-level pages
Phylogenetic for Bioinformatics
Biologists estimate that there are about 5 to 100 million species of organisms living on Earth today. Evidence fro...lly through phylogenetic trees. Due to the fact that evolution takes place over long...3958 days ago
Useful Publications and Websites for Deep Sequencing Data Analysis
Global overview papers Next gener...Compression of DNA sequence reads in FASTQ format. Deorowicz &a...FASTX-toolkit: FASTQ/A short-reads pre-processing tools Home Pag...n FM-index of the 1.2 billion reads] Readjoiner: a fast and memo...sis of the resulting sequence reads.] Genotyping by sequencing...3791 days ago
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Wire posts
News
Prime Minister’s 100k Genome Project
Genomics Ebgland is destined to sequence 100,000 patients over the next five year in England. A landmark pro...overnment. Genomics England will play a key role in building on the UK’s long...3935 days ago
Illumina reveals first dataset of long reads
...technology , acquired by Illumina releases new service for long reads sequencing i.e., FastTrack Long Reads. Average read length is arou...a. You can also check following pages for publications on long reads and more: http://www.illumin...3920 days ago
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Opportunity posts
Postdoc Positions - Mammalian Transcriptome Evolution at SIB
BIOINFORMATICS POSTDOC IN FUNCTIONAL EVOLUTIONARY GENOMICS Center for Integrative Genomics, University of Lausa...gins and/or evolution of protein-coding genes, alternative splicing, microRNAs, long...3930 days ago
Research Fellow @ Mendel laboratory
...q and miRNA-Seq data. Main activities will be: (i) data analysis (short-reads mapping, variants call and a...uting facility, a non-conventional workstation of GPUs and a short- and long-term storage disk. Applicat...3825 days ago
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ResearchLabs posts
- Location :European Molecular Biology Laboratory (EMBL), Heidelberg, Germany. Our long-term research objective is to understand microtubule organization in living cells, with an emphasis on mi...
3960 days ago
- Broad Area of Research: RNA biology (microRNA, lncRNA), Stem cells, Functional genomics, Epigenomics and Cancer RNAs, especially non-coding RNAs (such as microRNA, long...
3885 days ago
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Video
Bioinformatics -- Understanding of living systems through information science
Recently, the progress of the Human Genome Project, aiming to decode all human DNA seq...d between species. If the genome is considered as a long text, then anchors can be tho...es a next-generation sequencer at Keio University, along...3929 days ago
Genome + Epigenome = New Understanding of the Pathogens in Your Food
UC Davis's Bart Weimer describes foodborne pathogens and their proclivity for rapid genome rearrangement. The 100K Pathogen Genome Project he leads is using PacBio long-...3885 days ago
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Bio-Scripts
- # To follow these instructions, we'll assume your system admins have already installed these essentials: # Debian...a Statistics::Lite Tie::Autotie Tie::IxHash Log::Log4perl FindBin::Real Getopt::Long...
2156 days ago
Retrieve NCBI GenBank records with a range of accession numbers
#!/usr/bin/perl #FILE: ncbi_search.pl #AUTH: Paul Stothard (paul.stothard@gmail.com) use warnings; use strict; use Getopt::Long; use LWP::Simple; use URI::...tries => 5, help => undef ); Getopt::Long:...2928 days ago
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Polls
Which of the following programming language is best for a bioinformatics beginner?
I will be doing NGS in the course of my research work and I will like to learn a...oinformatics tools or software. I basically want to do de-novo assembly, map reads, align reads, and expression analysis. Rec...3542 days ago
How long have you been a bioinformatics scientist for?
Most of the researcher have been a scientist whole life, but infact they actually started paying it with at certain time.So, how long have you been in bioinformatics domain now?3251 days ago
Tryst
Tryst with a Bioinformatician # Dr Altan Kara
Dr Altan Kara is a Bioinformatics specialist at the faculty of Gene Engineerin...you always miss in bioinformatics when you will no longer working in this field?...ernative solution to various biological problems. A long...2374 days ago
Tags
GraphUnzip: Phases an assembly graph using Hi-C data and/or long reads.
GraphUnzip, a fast, memory-efficient and accurate tool to unzip assembly graphs into their constituent haplotypes using long reads and/or Hi-C data. As GraphUnzip only connects sequences in the assembly graph that already had a potential link based on overlaps, it yields high-quality gap-less sup...Tags: GraphUnzip, Phases, assembly, graph, Hi-C, data, long reads
1196 days ago
Severus: a somatic structural variation (SV) caller for long reads
Severus is a somatic structural variation (SV) caller for long reads (both PacBio and ONT). It is designed for matching tumor/normal analysis, supports multiple tumor samples, and produces accurate and complete somatic and germline calls. Severus takes advantage of long-read phasing and uses the ...Tags: Severus, somatic, structural, variation, SV, caller, long reads
47 days ago
Comments
Comment on "Long read assembly workshop !"
Long reads base bacterial genome assembly https://inf-biox121.readthedocs.io/en/2016/Assembly/practicals/07_Assembly_using_minasm+racon.html2051 days ago
Comment on "Long read assembly workshop !"
Long reads assembly PPT https://www.msi.umn.edu/sites/default/files/Badalamenti_PacBio_tutorial_12-10-2014.pdf2051 days ago
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