Computer simulation of genetic mechanism !!
Computer simulation is the discipline of designing a model of...A tool to generate collections of synthetic reads that reflect the diverse taxo...pIRS Profile-based Illumina pair-end reads simulator https://code.google...2937 days ago
2765 days ago
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...1108 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 Gopal3872 days ago
Bioinformatics approach to Boar Taint
Meat products obtained from intact male pigs often produce offensive smell or odour whic...int levels were done in Illumina HiSeq2000 to >10X average coverage. Short reads generated from these samples...3752 days ago
2113 days ago
Genome Assembly Tools and Software - PART2 !!
The genome assemblers generally take a file of short sequence reads and a file of quality-value a...xpression levels from RNA-Seq reads. MaLTA – Transcriptome...ose contigs can be individual reads from a subset of the paired-r...ended for Illumina sequencing reads. Quake adopts the k-mer error...2648 days ago
Awesome perl frameworks, libraries and software - PART 4
tjstein/php5-fpm-munin-plugins - A set of Munin plugin...hetop is a console-based tool for monitoring the threads and overall performance of a...ut-nginx-module - This is a nginx module that reads HTTP POST and PUT request bod...2456 days ago
Useful Publications and Websites for Deep Sequencing Data Analysis
Global overview papers Next generation...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...3742 days ago
List of generic simulation software/tools/resource with brief description and homepage !!!
List of generic simulation software/tools/resource with brief...etaSim A tool to generate collections of synthetic reads that reflect the diverse taxo...t.ly/rlsim-gitpIRS Profile-based Illumina pair-end reads simulator https://code.google...3699 days ago
Illumina reveals first dataset of long reads
With the help of Moleculo technology , acquired by Illumina releases new service for long reads sequencing i.e., FastTrack Long Reads. Average read length is arou...ck following pages for publications on long reads and more: http://www.illumin...3870 days ago
RNA-Seq Data Pathway and Gene-set Analysis Workflows
It describe the GAGE (Luo et al., 2009) /Pahview (Luo and Brouwer, 2013) workflows on&nb...set Analysis Workflows“. First cover a full workflow from preparation, reads counting, data preprocessing,...3795 days ago
Research Fellow @ Mendel laboratory
IRCCS Casa Sollievo della Sofferenza – Mendel laboratory is seeking one talented bioinfo...RNA-Seq and miRNA-Seq data. Main activities will be: (i) data analysis (short-reads mapping, variants call and an...3775 days ago
3605 days ago
Genetics, epigenetics and disease
Royal Society GlaxoSmithKline Prize Lecture given by Professor Adrian Bird CBE FMedSci F...he autism spectrum disorder Rett syndrome is caused by loss of a protein that reads methylated CG and affects the...3835 days ago
2834 days ago
2226 days ago
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 prog...nformatics tools or software. I basically want to do de-novo assembly, map reads, align reads, and expression analysis. Rec...3493 days ago
Quick next generation sequencing (NGS) terms definition
fragment size: the Illumina WGS protocol generates paired-end reads from both ends of longer fragments. The lengths of these fragments are assumed to be sampled from a normal distribution. Therefore, in the absence of structural variants, mapping locations of the paired ends span within an i...Tags: Quick, NGS, definition, fragment size, concordant reads, discordant reads, split reads, read depth
2484 days ago