AIRR-seq pre-processing workflows - Githubissues

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AIRR-seq pre-processing workflows #51

Open schristley opened 6 months ago

schristley commented 6 months ago

Consistent and transparent AIRR preprocessing pipelines. AIRR data is processed from FASTQ to FASTA reads in a way that is consistent between repositories and between studies with similar protocols. The protocol used is identifiable and reproducible.

[ ] VDJServer's VDJPipe app
[ ] VDJServer's Presto app
[ ] SRA download
[ ] Immcantation's airr-flow?
[ ] VDJbase pipeline?
[ ] others?

Capture how preprocessing is done (transparency/reproducibility)
Preprocessing pipeline
Acquire raw data for preprocessing
Preprocessing architecture
Preprocessing automation
Consistently preprocessed data

schristley commented 5 months ago

[ ] VDJServer's VDJPipe app

Has been ported to Tapis V3 application.