Annotation

• Get instance up with GO codebase for indexing and perl for saving
• hg19 and hg38 built on new codebase with 108 features for IBDGC
• Output MNP linkage information
• Add pLi and Loeuf scores for genes, if possible with existing builders, else document strategy
• Add MPC scores for variants, if possible with existing builders, else document strategy
• New annotation features and new annotation output (Change SNP to MNP where needed)
• (stretch) Allow settings for you to not annotate everything

Ancestry

• Develop better strategy for marker missingness and imputation strategy (PPCA)
• Fix how data is returned (needs to be read from file) -> also for configuration files
• QC measure

Proteomics

• Make a plan for new join procedure
• Expose proteomic endpoints correctly to go through webapp and is authenticated and jobs are behind a queue

User management

• Search by at least sample ID and subject ID through all pages instead of current page
• Scroll horizontally
• Add row, should be able to edit
• Allow drag and drop new file into manage your experiments
• Allow drag and drop new file into existing file when your table is open in manage your experiments, should only use that particular experiment (no new modal pops up)
• Allow template to be downloaded
• Add support for xlsx files

PRS

• Finish v1 of LD clumping procedure using genetic maps
• Add specific ancestry connection to genetic maps
• Add functionality for GWAS catalog as input
• Add p-value thresholding with GWAS catalog inputs