Calculated genotype likelihoods from BAM files.
meta:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end
bam:file
A list of BAM or CRAM files
*.{bam,cram}
meta2:map
Groovy Map containing reference information e.g. [ id:‘test’ ]
fasta:file
A reference genome in FASTA format
*.fasta
meta3:map
error_file:file
A file containing information about type specific errors.
*.error.chunkunordered
genotype_likelihood
Groovy Map containing sample information e.g. [ id:'sample1', single_end:false ]
[ id:'sample1', single_end:false ]
*.{glf,beagle}.gz:file
File containing genotype likelihoods per sample
*.{glf,beagle}.gz
versions
versions.yml:file
File containing software versions
versions.yml
ANGSD: Analysis of next generation Sequencing Data
