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Ranbow: a haplotype assembler for polyploid genomes
By Jit 2989 days agowww.molgen.mpg.de - Ranbow is a haplotype assembler for polyploid genomes. It has been developed for the haplotype assembly of the hexaploid sweet potato genome, which is highly heterozygous. Ranbow can also be applied to other polyploid genomes. After a first phasing,...Phased Human Genome Assembly !
By Rahul Nayak 2860 days agoDiploid Assembly of a Puerto Rican Female Adds a Rich Resource to Population-Specific Reference GenomesRaGOO: Fast Reference-Guided Scaffolding of Genome Assembly Contigs
By BioJoker 2668 days agogithub.com - Alonge M, Soyk S, Ramakrishnan S, Wang X, Goodwin S, Sedlazeck FJ, Lippman ZB, Schatz MC: Fast and accurate reference-guided scaffolding of draft genomes. bioRxiv 2019. RaGOO is a tool for coalescing genome assembly contigs into...QuasiModo - Quasispecies Metric Determination on Omics
By Neel 1867 days agogithub.com - This repository contains the scripts and pipeline that reproduces the results of the HCMV benchmarking study. In this study we evaluated genome assemblers and variant callers on 10 in vitro generated, mixed strain HCMV sequence samples, each...ALE: Assembly Likelihood Estimator
By BioStar 1248 days agogithub.com - Just import the assembly, bam and ALE scores. You can convert the .ale file to a set of .wig files with ale2wiggle.py and IGV can read those directly. Depending on your genome size you may want to convert the .wig files to the BigWig format.Snakemake—a scalable bioinformatics workflow engine
By Jit 2895 days agobioconda.github.io - Snakemake is a workflow engine that provides a readable Python-based workflow definition language and a powerful execution environment that scales from single-core workstations to compute clusters without modifying the workflow.
Is reference genome necessary for gene expression study in transcriptome sequencing or for variant discovery in genome sequencing?
Rahul Agarwal 4768 days agoBarber pole worm , sheep pathogen sequenced !!!
By Rahul Agarwal 4720 days agoResearchers have uncovered essential information in the fight against drug resistance in worms.Encode sequencing data freely available to download and use for academic means
By Rahul Agarwal 4529 days ago Comments (3)genome.ucsc.edu - In Encode, regulatory elements investigated via DNA hypersensitivity assays, assays of DNA methylation, and chromatin immunoprecipitation (ChIP) of proteins that interact with DNA, including modified histones and transcription factors, followed...
