Vcflib
C++ library and cmdline tools for parsing and manipulating VCF files with python and zig bindings (by vcflib)
TileDB-VCF
Efficient variant-call data storage and retrieval library using the TileDB storage library. (by TileDB-Inc)
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| Vcflib | TileDB-VCF | |
|---|---|---|
| - | 4 | |
| 595 | 79 | |
| 1.8% | - | |
| 2.6 | 8.6 | |
| 4 days ago | about 24 hours ago | |
| C++ | C++ | |
| MIT License | MIT License |
The number of mentions indicates the total number of mentions that we've tracked plus the number of user suggested alternatives.
Stars - the number of stars that a project has on GitHub. Growth - month over month growth in stars.
Activity is a relative number indicating how actively a project is being developed. Recent commits have higher weight than older ones.
For example, an activity of 9.0 indicates that a project is amongst the top 10% of the most actively developed projects that we are tracking.
Stars - the number of stars that a project has on GitHub. Growth - month over month growth in stars.
Activity is a relative number indicating how actively a project is being developed. Recent commits have higher weight than older ones.
For example, an activity of 9.0 indicates that a project is amongst the top 10% of the most actively developed projects that we are tracking.
Vcflib
Posts with mentions or reviews of Vcflib.
We have used some of these posts to build our list of alternatives
and similar projects.
We haven't tracked posts mentioning Vcflib yet.
Tracking mentions began in Dec 2020.
TileDB-VCF
Posts with mentions or reviews of TileDB-VCF.
We have used some of these posts to build our list of alternatives
and similar projects. The last one was on 2022-11-12.
-
Has anyone stored/queried VCFs and their variant records in a relational database?
Perhaps of interest https://github.com/TileDB-Inc/TileDB-VCF
-
[TileDB webinar] Population genomics is a data management problem
Here are the docs to the open-source TileDB-VCF storage engine: https://docs.tiledb.com/main/integrations-and-extensions/population-genomics
What are some alternatives?
When comparing Vcflib and TileDB-VCF you can also consider the following projects:
libsequence - libsequence: a C++ class library for evolutionary genetic analysis
Hail - Cloud-native genomic dataframes and batch computing
SeqAn - SeqAn's official repository.
gwas2vcf - Convert GWAS summary statistics to VCF
Wham - Structural variant detection and association testing
truvari - Structural variant toolkit for VCFs
cellSNP - Pileup biallelic SNPs from single-cell and bulk RNA-seq data
TileDB - The Universal Storage Engine
hap.py - Haplotype VCF comparison tools
sgkit - We've moved to https://github.com/sgkit-dev/sgkit
gw - Genome browser and variant annotation
octopus - Bayesian haplotype-based mutation calling