Topic: phasing Goto Github
Some thing interesting about phasing
Some thing interesting about phasing
phasing,Set of scripts used for the paper "A Neurodegenerative Disease Landscape of Rare Mutations in Colombia Due to Founder Effects"
User: acostauribe
phasing,Autoencoders for genomic data compression, classification, imputation, phasing and simulation.
Organization: ai-sandbox
Home Page: https://www.biorxiv.org/content/10.1101/2023.09.27.558320v1
phasing,GWAS QC, PCA, haplotype phasing, genotype imputation
Organization: atgu
Home Page: https://gwaspy.readthedocs.io/
phasing,A phasing and imputation pipeline for NGS data
Organization: bigcs-lab
phasing,scripts associated with yam genome assembly
User: bpucker
phasing,Pipeline for genotype phasing using SHAPEIT4
Organization: cerc-genomic-medicine
phasing,dEploid is designed for deconvoluting mixed genomes with unknown proportions. Traditional ‘phasing’ programs are limited to diploid organisms. Our method modifies Li and Stephen’s algorithm with Markov chain Monte Carlo (MCMC) approaches, and builds a generic framework that allows haloptype searches in a multiple infection setting.
Organization: deploid-dev
Home Page: http://deploid.readthedocs.io/en/latest/index.html
phasing,An R interface for dEploid. dEploid is designed for deconvoluting mixed genomes with unknown proportions. Traditional ‘phasing’ programs are limited to diploid organisms. Our method modifies Li and Stephen’s algorithm with Markov chain Monte Carlo (MCMC) approaches, and builds a generic framework that allows haloptype searches in a multiple infection setting.
Organization: deploid-dev
Home Page: https://github.com/mcveanlab/DEploid
phasing,Easy, fast, configurable version of phasor. Perfect for students who what to start with analyzing Coherent X-ray Diffraction Data.
User: dzhigaevd
phasing,a python program to stitch the ReadBack phased haplotypes in F1 hybrids.
User: everestial
phasing,A pipeline for phasing haploptypes using short readbackphased haplotype blocks in population of samples.
User: everestial
phasing,Collection of several small tools. These tools stay here temporarily and may move to other major repositories as they evolve.
User: everestial
phasing,A python parser to simplify and build the VCF (Variant Call Format).
User: everestial
phasing,Pipeline for analyzing (rare) mutations in metagenome-assembled genomes
User: fedarko
phasing,gwas workflow from raw intensity data to in-silico functional mapping
Organization: genemap-research
Home Page: https://genemap-research.github.io/docs/workflows/gwas/
phasing,haplotype estimation, custom panel creation, and genotype imputation
Organization: genemap-research
Home Page: https://genemap-research.github.io/genemapimputationservice/
phasing,ClairS - a deep-learning method for long-read somatic small variant calling
Organization: hku-bal
phasing,A pipeline to select the best K (number of clusters) for fastPHASE imputation and phasing.
User: inzilico
phasing,This workflow uses Dorado, Samtools, Clair3, WhatHap and Modkit to extract a modification count table containing information for each relevant site.
User: lauraskak
phasing,Bayesian haplotype-based mutation calling
Organization: luntergroup
phasing,
User: maddalenacella
phasing,An add-on to floria for clustering reads into strains
User: maxibor
phasing,Segmented HAPlotype Estimation and Imputation Tool
User: odelaneau
Home Page: https://odelaneau.github.io/shapeit5/
phasing,Ploidy agnostic phasing pipeline and algorithm
User: omaroakheart
phasing,Small variant, structural variant, and short tandem repeat phasing tool for PacBio HiFi reads
Organization: pacificbiosciences
phasing,Minor Variant Calling and Phasing Tools
Organization: pacificbiosciences
phasing,Microsatellite genotyping
User: pengjia6
phasing,A NextFlow pipeline for evaluating assembly quality
Organization: plant-food-research-open
Home Page: https://plant-food-research-open.github.io/assemblyqc/
phasing,LD-based phasing algorithm for segregating F1 populations (pseudo-oneway testcross)
User: plantformatics
phasing,Pipeline code for creating a fully haplotype-resolved assembly from a combination of PacBio/ONT long reads and Illumina Strand-seq data
User: ptrebert
phasing,VariantCaller is a wrapper for the 2022 gatk & bcftools best practices + phasing with WhatsHap.
User: rhettrautsaw
phasing,Phasing and genotype Imputation comparison. Have been evaluated: BEAGLE 5.4, EAGLE 2.4.1, SHAPEIT 4, MINIMAC 4, IMPUTE 5, using accuracy metrics like: IQS(Imputation Quality score), r2 (Pearson correlation), Concordance.
Organization: selfdecode
Home Page: https://www.selfdecode.com
phasing,Step-by-step guide to different types of phasing and testing their accuracy
User: sonisarm
phasing,Genotype imputation pipelines for the UK Biobank Research Analysis Platform
User: srubinacci
Home Page: https://srubinacci.gitbook.io/uk-biobank-imputation-pipelines/
phasing,Python library for simple and complex indels.
Organization: stjude
Home Page: https://indelpost.readthedocs.io/en/latest/
phasing,An efficient genetic data imputation pipeline
Organization: transbiozi
phasing,psychedelic visual synthesizer color-organ style
User: victimofleisure
Home Page: https://sourceforge.net/projects/triplight/
phasing,HapHiC: a fast, reference-independent, allele-aware scaffolding tool based on Hi-C data
User: zengxiaofei
phasing,Phase, partition and visualize subgenomes of a neoallopolyploid or hybrid based on the subgenome-specific repetitive kmers.
User: zhangrengang
Home Page: https://doi.org/10.1111/nph.18173
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