Jit
Enthusiast computational biologist with business dream !!!
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The genome factory !!!
By Madhvan Reddy 3964 days agoWorld’s first $1,000 genome enables ‘factory’ scale sequencing for population and disease studiesAmity University Bioinformatics Summer Program - Kolkata
By eliabrodsky 1991 days agoRegistrations are now open for the 2019 Summer Bioinformatics Training program at Amity University, Kolkata.Porechop: tool for finding and removing adapters from Oxford Nanopore reads
By Rahul Nayak 2370 days agogithub.com - Porechop is a tool for finding and removing adapters from Oxford Nanopore reads. Adapters on the ends of reads are trimmed off, and when a read has an adapter in its middle, it is treated as chimeric and chopped into separate reads. Porechop...BASE: a practical de novo assembler for large genomes using long NGS reads
By Rahul Nayak 2227 days agogithub.com - new de novo assembler called BASE. It enhances the classic seed-extension approach by indexing the reads efficiently to generate adaptive seeds that have high probability to appear uniquely in the genome. Such seeds form the basis for BASE...
Next generation sequencing in R or bioconductor environment
Last updated 3826 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...Bioinformatics algorithms tutorials
By John Parker 3805 days agowww.homolog.us - Useful bioinformatics tutorial, such as De Bruijn Graphs for NGS AssemblyAlgorithms for PacBio ReadsSoftware and Hardware Concepts for BioinformaticsFinding us in Homolog.us (Search Algorithms)NGS Genome and RNAseq Assembly - a Hands on...Pacasus: Correction of palindromes in long reads from PacBio and Nanopore
By BioStar 2203 days agogithub.com - Tool for detecting and cleaning PacBio / Nanopore long reads after whole genome amplification. Check the poster from the Revolutionizing Next-Generation Sequencing (2nd edition) conference in the source...Orione – a web-based framework for NGS analysis in microbiology
By Martin Jones 3776 days agohttp://orione.crs4.it/ - End-to-end NGS microbiology data analysis requires a diversity of tools covering bacterial resequencing, de novo assembly, scaffolding, bacterial RNA-Seq, gene annotation and metagenomics. However, the construction of computational pipelines that...mutatrix: a population genome simulator which generates simulated genomes.
By Jit 1761 days agogithub.com - genome simulation across a population with zeta-distributed allele frequency, snps, insertions, deletions, and multi-nucleotide polymorphisms More at https://github.com/ekg/mutatrix ./mutatrix -S sample -P test/ -p 2 -n 10 reference.fastaCoLoRMap: Correcting Long Reads by Mapping short reads
By Jit 2286 days agogithub.com - Second generation sequencing technologies paved the way to an exceptional increase in the number of sequenced genomes, both prokaryotic and eukaryotic. However, short reads are difficult to assemble and often lead to highly fragmented assemblies....
