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Abhi on LoReTTA, a user-friendly tool for assembling viral genomes from PacBio sequence data (173 days ago): Detail paper here https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8111061/- BioStar on Perl Module Installation (629 days ago): To install BioPerl on a macOS system, you can follow these steps: Open the...
- Abhi on CovCal: Coverage / Read Count Calculator (790 days ago): Sequencing coverage is defined as the average number of reads that covers...
- Neel on CheckM:Assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes (842 days ago): MOre at https://bitbucket.org/berkeleylab/checkv/src/master/
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Alignment of closely related whole genomes/scaffolds
By Rahul Nayak 3226 days ago Comments (1)www.cs.utoronto.ca - With the relative ease and low cost of current generation sequencing technologies has led to a dramatic increase in the number of sequenced genomes for species across the tree of life. This increasing volume of data requires tools that can quickly...Bioinformatics Made Easy Search: Bioinformatics tools and run genomic analysis in the cloud
By Rahul Nayak 3388 days agohttps://insidedna.me/ - InsideDNA makes hundreds of bioinformatics tools immediately available to run via an easy-to-use web interface and allows an accurate search across all functions, tools and pipelines. With InsideDNA, you can upload and store your own...Visual machine learning !!!
By Jitendra Narayan 3410 days ago Comments (1)www.r2d3.us - In machine learning, computers apply statistical learning techniques to automatically identify patterns in data. These techniques can be used to make highly accurate predictions. More at http://www.r2d3.us/visual-intro-to-machine-learning-part-1/Algorithms for DNA Sequencing (course offered each month)
By Rahul Agarwal 3413 days agowww.coursera.org - "We will learn computational methods -- algorithms and data structures -- for analyzing DNA sequencing data. We will learn a little about DNA, genomics, and how DNA sequencing is used. We will use Python to implement key algorithms and data...Resolving the complexity of the human genome using single-molecule sequencing
By Rahul Agarwal 3428 days agowww.nature.com - The human genome is arguably the most complete mammalian reference assembly yet more than 160 euchromatic gaps remain and aspects of its structural variation remain poorly understood ten years after its completion. The results in this paper...Directional dominance on stature and cognition in diverse human populations
By Rahul Agarwal 3428 days agowww.nature.com - Analysis of the genomes of >350,000 individuals revealed the existence of a small though measureable association between genome-wide homozygosity and some vital complex traits... Directional dominance is predicted for traits under...Assembly and diploid architecture of an individual human genome via single-molecule technologies
By Rahul Agarwal 3428 days agowww.nature.com - The research work shows that it is now possible to integrate single-molecule and high-throughput sequence data to generate de novo assembled genomes that approach reference...Scaffolding of a bacterial genome using MinION nanopore sequencing
By Rahul Agarwal 3432 days agowww.nature.com - Second generation sequencing has revolutionized genomic studies. However, most genomes contain repeated DNA elements that are longer than the read lengths achievable with typical sequencers, so the genomic order of several generated contigs cannot...GraphMap - A highly sensitive and accurate mapper for long, error-prone reads
By Rahul Agarwal 3433 days ago Comments (1)github.com - GraphMap is a novel mapper targeted at aligning long, error-prone third-generation sequencing data.It is designed to handle Oxford Nanopore MinION 1d and 2d reads with very high sensitivity and accuracy, and also presents a significant...BioScripts
By Rahul Nayak 3441 days agocode.google.com - You are requested to please bookmark collection of bioinformatics tools, scripts, codes that can be pieced together in a very easy and flexible manner to perform both simple and complex bioinformatics tasks. The next-generation sequencing included...
