Added code creating transcript_ref and transcript_cds resources from gs://regional_missense_constraint/notebooks/create_gene_transcript_coordinates_ref.ipynb to rmc/utils/data_loading.py (I didn't add any of the checks done in that NB, though)
Removed code to import ClinVar and NDD resources from generic.py (moved to data_loading.py)
Minor changes:
Added code calling create_transcript_ref (new function to create transcript_ref and transcript_cds resources) to constraint.py
Updated schemas of transcript_ref and transcript_cds; rmc/resources/reference_data.py
Added GRCh38 paths of these resources to rmc/resources/reference_data.py (but did not create them yet)
Added GRCh38 path for ClinVar HT to rmc/resources/reference_data.py (also did not create this table yet)
Updated references to names of row fields within transcript_ref in constraint.py (per new schema)
Sadly, 307 wasn't the last PR.
Major changes:
transcript_refandtranscript_cdsresources fromgs://regional_missense_constraint/notebooks/create_gene_transcript_coordinates_ref.ipynbtormc/utils/data_loading.py(I didn't add any of the checks done in that NB, though)generic.py(moved todata_loading.py)Minor changes:
create_transcript_ref(new function to createtranscript_refandtranscript_cdsresources) toconstraint.pytranscript_refandtranscript_cds;rmc/resources/reference_data.pyrmc/resources/reference_data.py(but did not create them yet)rmc/resources/reference_data.py(also did not create this table yet)transcript_refinconstraint.py(per new schema)