Our Sponsors
Related items
AIRVF: a filtering toolbox for precise variant calling in Ion Torrent sequencing
By BioStar 2526 days agosourceforge.net - AIRVF that works on flowgram, raw and mapped reads and called variants to reduce artifact-driven false variant calls. Tests on sequencing data of standard reference material showed up to ∼98% reduction of false variants when combined to...VG: variation graph data structures, interchange formats, alignment, genotyping, and variant...
By Jit 1759 days agogithub.com - Variation graphs provide a succinct encoding of the sequences of many genomes. A variation graph (in particular as implemented in vg) is composed of: nodes, which are labeled by sequences and ids edges, which connect two nodes via either of...Variant Calling Resequencing-Based Genome Inference
By Abhi 113 days agoevomics.org - Variant Calling - Resequencing-Based Genome Inference Erik GarrisonUniversity of Tennessee Health Science CenterWorkshop on Genomics - Český KrumlovJanuary 12,...Ensembl Variation - Calculated variant consequences
By Jit 2265 days agowww.ensembl.org - For each variant that is mapped to the reference genome, we identify all overlapping Ensembl transcripts. We then use a rule-based approach to predict the effects that each allele of the variant may have on each transcript. The set of consequence...Snippy: Rapid haploid variant calling and core SNP phylogeny
By Neel 2294 days agogithub.com - Snippy finds SNPs between a haploid reference genome and your NGS sequence reads. It will find both substitutions (snps) and insertions/deletions (indels). It will use as many CPUs as you can give it on a single computer (tested to 64 cores). It is...UnCoVar: Workflow for Transparent and Robust Virus Variant Calling, Genome Reconstruction and...
By BioStar 107 days agoikim-essen.github.io - UnCoVar: Workflow for Transparent and Robust Virus Variant Calling, Genome Reconstruction and Lineage Assignment Using state of the art tools, easily extended for other viruses Tool and database updates for critical components via...CRBHits: From Conditional Reciprocal Best Hits to Codon Alignments and Ka/Ks in R
By Shruti Paniwala 1470 days agogitlab.gwdg.de - CRBHits is a coding sequence (CDS) analysis pipeline in R (R Core Team, 2019). It reimplements the Conditional Reciprocal Best Hit (CRBH) algorithm crb-blast and covers all necessary steps from sequence similarity searches, codon alignments to Ka/Ks...FastGT: an alignment-free method for calling common SNVs directly from raw sequencing reads
By Jit 1759 days agobioinfo.ut.ee - FastGT is a program package for whole-genome genotyping of genome variants directly from raw sequencing reads. It is written in C and runs in Linux. FastGT uses a list of variant-specific k-mer pairs that are unique in human genome, counts the...You and your friend have similar DNA !!!
By Jit 3770 days agoYour friends may be as genetically similar to you as your fourth cousin ...QuasiModo - Quasispecies Metric Determination on Omics
By Neel 1244 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...
