DecodeGenetics

Pinned Repositories

BamHash
Language:C++37 8 78
graphtyper
Population-scale genotyping using pangenome graphs
Language:C++177 10 12120
graphtyper-pipelines
Recommended Graphtyper pipelines
Language:Shell14 9 64
LRcaller
Language:C++16 9 63
LRS_SV_sets
VCF files of SVs using long-read sequencing (LRS).
21 10 12
popSTR
PopSTR - A Population based microsatellite genotyper
Language:C++32 7 79
popvcf
Lossless VCF compression
Language:C++18 13 11
Ratatosk
Hybrid error correction of long reads using colored de Bruijn graphs
Language:C++100 8 527
read_haps
Detects human contamination in bam files
Language:C++16 8 21
svimmer
Structural variant merging tool
Language:Python49 8 119

DecodeGenetics's Repositories

DecodeGenetics/graphtyper
Population-scale genotyping using pangenome graphs
Language:C++177 10 12120
DecodeGenetics/Ratatosk
Hybrid error correction of long reads using colored de Bruijn graphs
Language:C++100 8 527
DecodeGenetics/svimmer
Structural variant merging tool
Language:Python49 8 119
DecodeGenetics/BamHash
Language:C++37 8 78
DecodeGenetics/popSTR
PopSTR - A Population based microsatellite genotyper
Language:C++32 7 79
DecodeGenetics/LRS_SV_sets
VCF files of SVs using long-read sequencing (LRS).
21 10 12
DecodeGenetics/popvcf
Lossless VCF compression
Language:C++18 13 11
DecodeGenetics/LRcaller
Language:C++16 9 63
DecodeGenetics/read_haps
Detects human contamination in bam files
Language:C++16 8 21
DecodeGenetics/graphtyper-pipelines
Recommended Graphtyper pipelines
Language:Shell14 9 64
DecodeGenetics/sv-merger
Forms SV cliques using the CAST (Cluster Affinity Search Technique) algorithm.
Language:Python8 2 0
DecodeGenetics/bamShrink
Filter for BAM-files
Language:C++5 6 10
DecodeGenetics/chopBAI
Chops a bam index file into pieces
Language:C++5 6 111
DecodeGenetics/BamQC
Quality control for BAM files
Language:C++4 7 00
DecodeGenetics/proteomics_comparison
Supplementary code for the article "Large-scale plasma proteomics comparisons through genetics and disease associations"
Language:Python4 5 00
DecodeGenetics/SViper
Swipe your Structural Variants called on long (ONT/PacBio) reads with short exact (Illumina) reads.
Language:C++4 1 01
DecodeGenetics/bamLiftOver
Language:C++3 6 0
DecodeGenetics/Stefanssonetal-Nature-Genetics-2024
Language:R2 3 00
DecodeGenetics/COVID19_reconstruction_iceland
Language:R1 13 00
DecodeGenetics/gnonadd
Language:R1 12 1
DecodeGenetics/mDNM_analysisAndData
Scripts for mDNM analysis and the data the analysis was run on.
Language:R1 14 00
DecodeGenetics/Nanopolish_SVsquigglefilter
Extension to nanopolish to compute alt-ref allele likelihood differences for suggested SVs using the squiggles of reads involved.
Language:C++1 7 0
DecodeGenetics/scrappie
Scrappie is a technology demonstrator for the Oxford Nanopore Research Algorithms group
Language:C1 1 0
DecodeGenetics/SeqAnHTS
A SeqAn 2.1 fork that can use htslib
Language:C++1 6 0
DecodeGenetics/SquiggleSV_samplerun
Sample run with test data on the squigglesv branch of Nanopolish
1 2 00
DecodeGenetics/nanopolish
Signal-level algorithms for MinION data
Language:C++1 0
DecodeGenetics/NCOurd
Modelling Length Distributions of NCO Events and Gene Conversion Tracts
Language:Python14 0
DecodeGenetics/PalssonEtAl_Nature_2024
Supplementary data for Nature publication: Complete human recombination maps