selfdecode / rd-imputation-accuracyLinks
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.
☆23Updated last year
Alternatives and similar repositories for rd-imputation-accuracy
Users that are interested in rd-imputation-accuracy are comparing it to the libraries listed below
Sorting:
- Structural variant merging tool☆57Updated last year
- Short scripts for converting genetic data between formats.☆29Updated 3 years ago
- Fast calculations of linkage-disequilibrium in large-scale human cohorts☆44Updated 6 years ago
- A method for variant graph genotyping based on exact alignment of k-mers☆87Updated 6 years ago
- Code for phasing SVs with SNPs☆52Updated 5 years ago
- Variant annotation and merging pipeline☆41Updated 4 months ago
- Hitting associations with k-mers☆44Updated 3 years ago
- Structural variant caller☆55Updated 4 years ago
- Toolkit for genome-wide analysis of tandem repeats☆58Updated last month
- a hidden Markov model to infer simple repeats from genome sequences☆36Updated 4 years ago
- Specifications for PacBio® native file formats☆31Updated last year
- Pipeline for structural variation detection in cohorts☆52Updated 4 years ago
- Tools for the analysis of structural variation in genomes☆81Updated last year
- ☆83Updated 9 months ago
- Structural variant (SV) analysis tools☆39Updated last year
- Alignment-free genotyper for SNPs and short indels, implemented in Python.☆53Updated 9 months ago
- perSVade: personalized Structural Variation detection☆40Updated 3 months ago
- Method for inferring path posterior probabilities and abundances from pangenome graph read alignments☆59Updated 3 months ago
- ☆35Updated 4 years ago
- Split-read pipeline for the identification of non-reference TE insertions with TSDs☆25Updated 5 years ago
- ☆51Updated 6 years ago
- Genome scaffolding based on HiC data in heterozygous and high ploidy genomes☆60Updated 11 months ago
- A tool for genotyping Variable Number Tandem Repeats (VNTR) from sequence data☆47Updated last year
- Public Benchmark of Long-Read Structural Variant Caller on PacBio CCS HG002 Data☆51Updated 4 years ago
- Runs a combination of tools to generate structural variant calls on whole-genome sequencing data☆48Updated 5 years ago
- MethPhaser: methylation-based haplotype phasing of human genomes☆52Updated 9 months ago
- Transposable element polymorphism identification☆34Updated 5 years ago
- Swipe your Structural Variants called on long (ONT/PacBio) reads with short exact (Illumina) reads.☆32Updated 3 years ago
- Reference-based variant calling pipeline for a pair of phased haplotype assemblies☆104Updated 4 years ago
- heuristics to merge structural variant calls in VCF format.☆38Updated 9 years ago