JustinChu / ntsm
This tools counts the number of specific k-mers within sequence data. The counts can then be compare to other counts to determine to compute the probability that sample are of the same origin to discover incongruent samples or sample swaps.
☆29Updated 4 months ago
Alternatives and similar repositories for ntsm:
Users that are interested in ntsm are comparing it to the libraries listed below
- Tandem repeat genotyping with long reads☆28Updated last month
- Kmer Analysis of Pileups for Genotyping☆21Updated last month
- ☆16Updated 11 months ago
- ☆16Updated last month
- SV analysis of the long-read sequencing data of the 1019 samples of the 1KG-ONT panel☆25Updated 2 weeks ago
- A Nextflow workflow to generate lift over files for any pair of genomes☆64Updated this week
- ☆29Updated 7 months ago
- Population-wide Deletion Calling☆35Updated 6 months ago
- Lightweight mosaic/somatic SV caller for long reads (WIP)☆28Updated 3 months ago
- R package and wrapper functions for identifying serial structural variations from genome assemblies☆27Updated 6 months ago
- SV calling for diploid assemblies☆26Updated last year
- A module for improving the insertion sequences of structural variant calls☆30Updated 3 years ago
- Improved Phased Assembler☆28Updated 3 years ago
- python plotly Circos from VCF☆34Updated 9 months ago
- Copy number variant caller and depth visualization utility for PacBio HiFi reads☆40Updated 5 months ago
- Working space for the GIAB TR benchmarking project☆21Updated 5 months ago
- crab go snap snap☆37Updated 2 months ago
- Tumour-only somatic mutation calling using long reads☆26Updated 5 months ago
- Improved structural variant discovery in accurate long reads using sample-specific strings (SFS)☆42Updated 5 months ago
- somatic SV calling on matched tumor-normal co-assembly graphs☆18Updated 8 months ago
- Command line tool to plot genomic coverage from a BAM file☆13Updated last year
- Code for phasing SVs with SNPs☆52Updated 5 years ago
- A local-haplotagging-based small and structural variant caller☆69Updated last week
- Complex structural variant visualization for HiFi sequencing data☆26Updated last week
- A battery of methylation tools for PacBio HiFi reads☆32Updated 3 weeks ago
- Detect and phase minor SNVs from long-read sequencing data☆14Updated 3 years ago
- DNA methylation analysis downstream to Nanopolish for Oxford Nanopore DNA sequencing datasets☆28Updated last year
- Genome assembly scaffolding using information from paired-end/mate-pair libraries, long reads, and synteny to closely related species.☆24Updated 6 years ago
- ☆26Updated last year
- A tool for de novo clustering of long transcriptomic reads☆15Updated 2 years ago