Efficient variant-call data storage and retrieval library using the TileDB storage library.
-
Updated
Jul 11, 2024 - C++
Efficient variant-call data storage and retrieval library using the TileDB storage library.
Single-header C++ library for fast/low-memory VCF (Variant Call Format) parsing.
Variant calling using a pan-genomic reference, version 3
High performance data storage for importing, querying and transforming variants.
iVar is a computational package that contains functions broadly useful for viral amplicon-based sequencing.
Basecalling, alignment, assembly and deconvolution of Sanger Chromatogram trace files
vcfdist: Accurately benchmarking phased variant calls
Population-wide Deletion Calling
C++ library and cmdline tools for parsing and manipulating VCF files with python and zig bindings
Fast and accurate gene fusion detection from RNA-Seq data
Bayesian haplotype-based mutation calling
Reference-free FASTQ filter for rare germline and somatic variants
Graph realignment tools for structural variants
Genome inference from a population reference graph
LCVCFtools is a program designed for working with VCF files generated from low-coverage whole genome sequencing
Whisper 2: indel-sensitive short read mapping. To cite this software publication: https://www.sciencedirect.com/science/article/pii/S2352711021000376
The repo was not under development. Check out angsd toolkit for low depth data analyses.
summarize and visualize the genotypes categories per sample in a VCF file
A method for variant graph genotyping based on exact alignment of k-mers
Add a description, image, and links to the variant-calling topic page so that developers can more easily learn about it.
To associate your repository with the variant-calling topic, visit your repo's landing page and select "manage topics."