Jit
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Liftoff: An accurate GFF3/GTF lift over pipeline
By Neel 1903 days agogithub.com - Liftoff is a tool that accurately maps annotations in GFF or GTF between assemblies of the same, or closely-related species. Unlike current coordinate lift-over tools which require a pre-generated “chain” file as input, Liftoff is a...dna2bit: an ultra-fast and accurate genomic distance estimation software
By LEGE 188 days agogithub.com - dna2bit is a software tool developed in C++11, leveraging the capabilities of OpenMP for parallel computing and the popcount technique for efficient bit manipulation. It has been thoroughly tested using the g++ and clang compilers on both Linux and...RapClust: Accurate, Lightweight Clustering of de novo Transcriptomes using Fragment Equivalence...
By Rahul Nayak 2711 days agogithub.com - RapClust is a tool for clustering contigs from de novo transcriptome assemblies. RapClust is designed to be run downstream of the Sailfish or Salmon tools for rapid transcript-level quantification. Specifically,...Cleaner BLAST Databases for More Accurate Results
By LEGE 683 days agoRemoving contaminated sequences using NCBI quality assurance toolsRITA: Rapid identification of high-confidence taxonomic assignments for metagenomic data
By Jit 3022 days agokiwi.cs.dal.ca - RITA is a standalone software package and Web server for taxonomic assignment of metagenomic sequence reads. By combining homology predictions from BLAST or UBLAST with compositional classifications from a Naive Bayes classifier, RITA is able to...BioCircos.js is an open source interactive Javascript library to interactive display biological...
By Jit 2969 days agobioinfo.ibp.ac.cn - BioCircos.js is an open source interactive Javascript library which provides an easy way to interactive display biological data on the web. It implements a raster-based SVG visualization using the open source Javascript...Epiviz: an interactive visualization tool for functional genomics data.
By Jit 2798 days agohttps://epiviz.github.io/ - Epiviz is an interactive visualization tool for functional genomics data. It supports genome navigation like other genome browsers, but allows multiple visualizations of data within genomic regions using scatterplots, heatmaps and other...nQuire: A statistical framework for ploidy estimation using NGS short-read data
By Jit 2592 days agogithub.com - nQuire implements a set of commands to estimate ploidy level of individuals from species, where recent polyploidization occurred and intraspecific ploidy variation is observed. Specifically, nQuire uses next-generation sequencing data to distinguish...Trelliscope: flexibly visualize large, complex data in great detail from within the R statistical...
By Jit 2237 days agodeltarho.org - Trelliscope provides a way to flexibly visualize large, complex data in great detail from within the R statistical programming environment. Trelliscope is a component in the DeltaRho environment. For those familiar with Trellis...Submit your SARS-CoV-2 sequence data to GenBank
By Neel 2158 days agoSubmit your SARS-CoV-2 sequence data to GenBank and SRA with our new submission landing page.
