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# CITATION file created with {cffr} R package
# See also: https://docs.ropensci.org/cffr/
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cff-version: 1.2.0
message: 'To cite package "tLOH" in publications use:'
type: software
license: MIT
title: 'tLOH: Assessment of evidence for LOH in spatial transcriptomics pre-processed
  data using Bayes factor calculations'
version: 1.13.0
abstract: tLOH, or transcriptomicsLOH, assesses evidence for loss of heterozygosity
  (LOH) in pre-processed spatial transcriptomics data. This tool requires spatial
  transcriptomics cluster and allele count information at likely heterozygous single-nucleotide
  polymorphism (SNP) positions in VCF format. Bayes factors are calculated at each
  SNP to determine likelihood of potential loss of heterozygosity event. Two plotting
  functions are included to visualize allele fraction and aggregated Bayes factor
  per chromosome. Data generated with the 10X Genomics Visium Spatial Gene Expression
  platform must be pre-processed to obtain an individual sample VCF with columns for
  each cluster. Required fields are allele depth (AD) with counts for reference/alternative
  alleles and read depth (DP).
authors:
- family-names: Webb
  given-names: Michelle
  email: michelgw@usc.edu
- family-names: Craig
  given-names: David
  email: davidwcr@usc.edu
repository: https://bioc.r-universe.dev
repository-code: https://github.com/USCDTG/tLOH
url: https://github.com/USCDTG/tLOH
date-released: '2021-05-05'
contact:
- family-names: Webb
  given-names: Michelle
  email: michelgw@usc.edu