a file called ${DNA_SAMPLE_ID}_small_variant_table_forQC.tsv
It would be good to know about all files and file default names which are expected by the tool, especially the files which need to be created manually.
Also, it would be nice to have all fallbacks documented (as when small_variant_table_forQC.tsv is not present, small_variant_table.tsv is used automatically).
PRONTO reads ${DNA_SAMPLE_ID}_small_variant_table.tsv if the file ${DNA_SAMPLE_ID}_small_variant_table_forQC.tsv does not exist in the post-processing result folder.
for example:
a file called ${DNA_SAMPLE_ID}_small_variant_table_forQC.tsv
It would be good to know about all files and file default names which are expected by the tool, especially the files which need to be created manually.
Also, it would be nice to have all fallbacks documented (as when small_variant_table_forQC.tsv is not present, small_variant_table.tsv is used automatically).