diff --git a/website/docs/modules/train_gcnv.md b/website/docs/modules/train_gcnv.md index c9c9b987a..f4b9073a7 100644 --- a/website/docs/modules/train_gcnv.md +++ b/website/docs/modules/train_gcnv.md @@ -74,12 +74,10 @@ The order of IDs in this list should match the order of files in `count_files`. A list of per-sample coverage counts generated in the [GatherSampleEvidence](./gse#outputs) workflow. #### `contig_ploidy_priors` -A tabular file with ploidy prior probability per contig. -You may use the following file as this input: - -``` -gs://gatk-sv-resources-public/gcnv-exome/contig_ploidy_prior_hg38.tsv -``` +A tabular file with ploidy prior probability per contig. +You may find the link to this input from +[this reference](https://github.com/broadinstitute/gatk-sv/blob/main/inputs/values/resources_hg38.json). +
File description @@ -110,13 +108,8 @@ gs://gatk-sv-resources-public/gcnv-exome/contig_ploidy_prior_hg38.tsv `reference_fasta`, `reference_index`, `reference_dict` are respectively the reference genome sequence in the FASTA format, its index file, and a corresponding [dictionary file](https://gatk.broadinstitute.org/hc/en-us/articles/360035531652-FASTA-Reference-genome-format). -You may use the following files for these inputs. - -```json -"reference_fasta": "gs://gcp-public-data--broad-references/hg38/v0/Homo_sapiens_assembly38.fasta", -"reference_index": "gs://gcp-public-data--broad-references/hg38/v0/Homo_sapiens_assembly38.fasta.fai", -"reference_dict" : "gs://gcp-public-data--broad-references/hg38/v0/Homo_sapiens_assembly38.dict" -``` +You may find links to these files from +[this reference](https://github.com/broadinstitute/gatk-sv/blob/main/inputs/values/resources_hg38.json). ## Outputs