Allele-specific analysis of next-generation sequencing data with high-performance multi-format variant support (VCF/cyvcf2/PGEN)

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  • License: MIT License (MIT)
  • Author: Aaron Ho, McVicker Lab
  • Tags bioinformatics , genomics , allele-specific , ngs , sequencing , wasp , allelic-imbalance , plink2 , pgen , vcf , cyvcf2 , high-performance
  • Requires: Python >=3.10
  • Provides-Extra: benchmark , cyvcf2 , dev , docs , plink , rust
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Project description

WASP2 - Allele-Specific Analysis Pipeline

CI Documentation License

Documentation • McVicker Lab • Original WASP

Quick Start

pip install wasp2

wasp2-count count-variants reads.bam variants.vcf.gz -s sample1

Authors

  • Aaron Ho — Creator of WASP2
  • Jeff Jaureguy — Developer and maintainer
  • McVicker Lab, Salk Institute

Citation

If you use WASP2 in your research, please cite our paper (coming soon).

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  • License: MIT License (MIT)
  • Author: Aaron Ho, McVicker Lab
  • Tags bioinformatics , genomics , allele-specific , ngs , sequencing , wasp , allelic-imbalance , plink2 , pgen , vcf , cyvcf2 , high-performance
  • Requires: Python >=3.10
  • Provides-Extra: benchmark , cyvcf2 , dev , docs , plink , rust
Classifiers

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1.4.1

1.4.0

1.3.3

1.3.2

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1.3.1

1.3.0

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