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+ Add a GIC usage note section in the README #2

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Expand Up @@ -123,6 +123,15 @@ zcat [VCF after script] | grep -v '^#' | cut -f 10- | md5sum

If the two checksums differ, it indicates that FORMAT fields were affected by the issue.

### Note: Recommended GIC Use Options

For the [GIC](https://www.genomicinformationcommons.org) project, it's preferred to use the following options to ensure data consistencies across all participating institutions:

* `--vep-gnomad-af gnomADg_AF`
* `--mode cds_rsid`

Please don't use the `--pick` option. As of March 2025, the [PIC-SURE HPDS](https://github.com/hms-dbmi/pic-sure-hpds) genomic import process can now handle variants with multiple consequences and genes. This makes the `--pick` option no longer necessary for GIC portal purposes.

### Python script options

`-R <path to FASTA file>`
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