From 3569c760531fee0d7226f378f0d979c91e905dc8 Mon Sep 17 00:00:00 2001 From: James Ko Date: Wed, 14 Aug 2024 15:00:18 -0400 Subject: [PATCH] Fix Datahub link in FAQ (#10931) --- docs/user-guide/faq.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/docs/user-guide/faq.md b/docs/user-guide/faq.md index 983be26a13a..e11eeedecff 100644 --- a/docs/user-guide/faq.md +++ b/docs/user-guide/faq.md @@ -200,7 +200,7 @@ The TCGA PanCancer Atlas datasets derive from an effort to unify TCGA data acros TCGA studies not sourced from GDC have the original mutation data generated by the individual TCGA sequencing centers. The source of the data is the Broad Firehose (or the publication pages for data that matches a specific manuscript). These data are usually a combination of two mutation callers, e.g. a variant caller like MuTect plus an indel caller. Note that the specific tools used and the overall process for identifying mutations can vary between centers and may have changed over time. -TCGA studies sourced from GDC use a newer version of the human reference genome, GRCh38 instead of GRCh37. For more information about the GDC data processing pipeline, see [GDC Data Processing](https://gdc.cancer.gov/about-data/gdc-data-processing). Transformations specific to our NCI-CRDC pipeline are documented in the [cBioPortal Datahub](https://github.com/cBioPortal/datahub). +TCGA studies sourced from GDC use a newer version of the human reference genome, GRCh38 instead of GRCh37. For more information about the GDC data processing pipeline, see [GDC Data Processing](https://gdc.cancer.gov/about-data/gdc-data-processing). Transformations specific to our NCI-CRDC pipeline are documented in the [cBioPortal Datahub](https://github.com/cBioPortal/datahub/tree/master/crdc). #### What happened to TCGA Provisional datasets? We renamed TCGA Provisional datasets to TCGA Firehose Legacy to better reflect that this data comes from a legacy processing pipeline. The exact same data is now available in TCGA Firehose Legacy studies. #### Where do the thresholded copy number call in TCGA Firehose Legacy data come from?