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Warning
titleSnippets

Within each snippet shown below, most lines end with the '\' character. This is not part of the command but a shorthand notation meaning "keep reading the next line as part of a single command." We do this to split each snippet over multiple lines so it is easier to read. 

The queries below work with the functional annotation data files present in:

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One can view all of the available VEP CellBase annotations using the command below - all annotations can be extracted and / or filtered for. Note that, split-vep has been designed to work with VEP and VEP-like annotation. The Cellbase annotation provided in somAgg is VEP-like. This requires the annotation field to be given explicitly to split-vep, which is done by using the flag -a CT.

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/gel_data_resources/main_programme/aggregation/aggregated_somatic_strelka/somAgg/v0.2/additional_data/vep_severity_scale/VEP_severity_scale_2020.txt

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/gel_data_resources/main_programme/aggregation/aggregated_somatic_strelka/somAgg/v0.2/additional_data/LIST_OF_CANONICAL_TRANSCRIPTS.v1.11.tsv

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