Jit
Enthusiast computational biologist with business dream !!!
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Structural polymorphism analysis from NGS data
The LabEx BASC (Biodiversity, Agroecosystems, Society, Climate), a network of 13 laboratories of the Paris-Saclay Scientific Cluster, is seeking a bioinformatician to analyze Next Generation Sequencing (NGS) data analysis. In the context of a...33rd Annual Convention of Indian Association for Cancer Research from 13th to 15th February 2014
RGCB is organizing the 33rd Annual Convention of Indian Association for Cancer Research from 13th to 15th February 2014 with the theme "Discovery, Innovation and Translation in Cancer Research" Kindly log on to conference website...3rd Annual Next Generation Sequencing Asia Congress 2013 at Singapore, Singapore
The 3rd Annual Next Generation Sequencing Asia Congress is to be held on the 22nd and 23rd of October 2013 in Singapore. Over the 2 days, the conference will provide an overview of the current options of next-generation sequencing platforms,...
My commonly used commands in Bioinformatics
Last updated 2313 days ago by Rahul NayakFYI, I've found it useful to use MUMmer to extract the specific changes that Racon makes, so I can evaluate them individually: minimap -t 24 assembly.fasta long_reads.fastq.gz | racon -t 24 long_reads.fastq.gz - assembly.fasta...Shasta long read assembler
By Jit 1776 days ago Comments (1)github.com - The goal of the Shasta long read assembler is to rapidly produce accurate assembled sequence using as input DNA reads generated by Oxford Nanopore flow cells. Computational methods used by the Shasta assembler include: Using...The genome factory !!!
By Madhvan Reddy 3965 days agoWorld’s first $1,000 genome enables ‘factory’ scale sequencing for population and disease studiesSmudgeplot: Inference of ploidy and heterozygosity structure using whole genome sequencing data
By Neel 1003 days agogithub.com - This tool extracts heterozygous kmer pairs from kmer count databases and performs gymnastics with them. We are able to disentangle genome structure by comparing the sum of kmer pair coverages (CovA + CovB) to their relative coverage (CovB / (CovA +...fragScaff: Genome Assembly with Contiguity Preserving Transposition
By Jit 2386 days agosourceforge.net - Contiguity preserving transposition and sequencing (CPT-seq) is an entirely in vitro means of generating libraries comprised of 9216 indexed pools, each of which contains thousands of sparsely sequenced long fragments ranging from 5 kilobases to...You can't hide from Genome Hackers
By Neel 2233 days agoYoung computational biologist named Yaniv Erlich shocked the research world by showing it was possible to unmask the identities of people listed in anonymous genetic databases using only an Internet connection-
Next generation sequencing in R or bioconductor environment
Last updated 3827 days ago by John Parker Comments (3)There are many R software and bioconductor packages for NGS data analysis, some of them are as follows Biostrings The Biostrings package from Bioconductor provides an advanced environment for efficient sequence management and analysis in R. It...
