Jit
Enthusiast computational biologist with business dream !!!
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QuasiModo - Quasispecies Metric Determination on Omics
By Neel 1868 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.MetaGraph: Ultra Scalable Framework for DNA Search, Alignment, Assembly
By Abhi 790 days agometagraph.ethz.ch - The MetaGraph framework is designed to work with a wide range of input data sets, indexing from a few samples up to the contents of entire archives with hundreds of thousands of records. The indexing workflow always follows the same principle,...Tools and Method for Haplotype phasing !
By Manisha Mishra 2163 days agoHuge amounts of genotype data are being produced with recent technological advances, both from increasingly comprehensive and inexpensive genome-wide SNP microarrays and from ever more accessible whole-genome and whole-exome sequencing methodssunbeam: A robust, extensible metagenomics pipeline
By Jit 2241 days agogithub.com - Sunbeam is a pipeline written in snakemake that simplifies and automates many of the steps in metagenomic sequencing analysis. It uses conda to manage dependencies, so it doesn't have pre-existing dependencies or admin...
Is reference genome necessary for gene expression study in transcriptome sequencing or for variant discovery in genome sequencing?
Rahul Agarwal 4769 days agoTwo major breakthrough!!
By Rahul Agarwal 4722 days agoHigh-value Tannat grape sequenced and $1 syphilis detection testEncode sequencing data freely available to download and use for academic means
By Rahul Agarwal 4530 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...Tsetse Fly Genome sequenced
By Rahul Agarwal 4487 days agohttp://www.sciencemag.org/content/344/6182/380
