Use vireo to perform donor deconvolution for multiplexed scRNA-seq data
meta{:bash}
:map
Groovy Map containing sample information e.g. [ id:'sample1']
[ id:'sample1']
cell_data{:bash}
:file
The cell genotype file in VCF format or cellSNP folder with sparse matrices.
*.vcf|*/
n_donor{:bash}
:integer
Number of donors to demultiplex.
donor_file{:bash}
The optional donor genotype file in VCF format.
*.vcf
vartrix_data{:bash}
The optional cell genotype files in vartrix outputs.
summary{:bash}
Groovy Map containing sample information e.g. [ id:'sample1' ]
[ id:'sample1' ]
*_summary.tsv{:bash}
Summary tsv file of deconvolution result.
*_summary.tsv
donor_ids{:bash}
*_donor_ids.tsv{:bash}
Donor assignment with detailed statistics.
*_donor_ids.tsv
prob_singlets{:bash}
*_prob_singlet.tsv.gz{:bash}
contains probability of classifing singlets
*_prob_singlet.tsv.gz
prob_doublets{:bash}
*_prob_doublet.tsv.gz{:bash}
contains probability of classifing doublets
*_prob_doublet.tsv.gz
versions{:bash}
versions.yml{:bash}
File containing software versions
versions.yml
vireoSNP - donor deconvolution for multiplexed scRNA-seq data
