├── .github ├── PULL_REQUEST_TEMPLATE.md ├── PULL_REQUEST_TEMPLATE │ └── literature_PR_template.md └── workflows │ ├── make-release.yaml │ └── update-loci.yaml ├── .gitignore ├── CITATION.cff ├── LICENSE ├── README.md ├── data ├── STRchive-citations.json ├── STRchive-loci.json ├── STRchive-loci.schema.json ├── catalogs │ ├── README.md │ ├── STRchive-disease-loci.T2T-chm13.TRGT.bed │ ├── STRchive-disease-loci.T2T-chm13.atarva.bed │ ├── STRchive-disease-loci.T2T-chm13.atarva.bed.gz │ ├── STRchive-disease-loci.T2T-chm13.atarva.bed.gz.tbi │ ├── STRchive-disease-loci.T2T-chm13.general.bed │ ├── STRchive-disease-loci.T2T-chm13.longTR.bed │ ├── STRchive-disease-loci.T2T-chm13.straglr.bed │ ├── STRchive-disease-loci.T2T-chm13.stranger.json │ ├── STRchive-disease-loci.hg19.TRGT.bed │ ├── STRchive-disease-loci.hg19.atarva.bed │ ├── STRchive-disease-loci.hg19.atarva.bed.gz │ ├── STRchive-disease-loci.hg19.atarva.bed.gz.tbi │ ├── STRchive-disease-loci.hg19.general.bed │ ├── STRchive-disease-loci.hg19.longTR.bed │ ├── STRchive-disease-loci.hg19.straglr.bed │ ├── STRchive-disease-loci.hg19.stranger.json │ ├── STRchive-disease-loci.hg38.TRGT.bed │ ├── STRchive-disease-loci.hg38.atarva.bed │ ├── STRchive-disease-loci.hg38.atarva.bed.gz │ ├── STRchive-disease-loci.hg38.atarva.bed.gz.tbi │ ├── STRchive-disease-loci.hg38.general.bed │ ├── STRchive-disease-loci.hg38.longTR.bed │ ├── STRchive-disease-loci.hg38.straglr.bed │ └── STRchive-disease-loci.hg38.stranger.json ├── literature │ ├── ABCD3_batch_01.txt │ ├── AFF2_batch_01.txt │ ├── AFF3_batch_01.txt │ ├── ARX_batch_01.txt │ ├── AR_batch_01.txt │ ├── ATN1_batch_01.txt │ ├── ATXN10_batch_01.txt │ ├── ATXN1_batch_01.txt │ ├── ATXN2_batch_01.txt │ ├── ATXN3_batch_01.txt │ ├── ATXN7_batch_01.txt │ ├── ATXN8OS_batch_01.txt │ ├── BEAN1_batch_01.txt │ ├── C9orf72_batch_01.txt │ ├── CACNA1A_batch_01.txt │ ├── CBL_batch_01.txt │ ├── CNBP_batch_01.txt │ ├── COMP_batch_01.txt │ ├── CSTB_batch_01.txt │ ├── DAB1_batch_01.txt │ ├── DIP2B_batch_01.txt │ ├── DMD_batch_01.txt │ ├── DMPK_batch_01.txt │ ├── EIF4A3_batch_01.txt │ ├── FGF14_batch_01.txt │ ├── FMR1_batch_01.txt │ ├── FOXL2_batch_01.txt │ ├── FXN_batch_01.txt │ ├── GIPC1_batch_01.txt │ ├── GLS_batch_01.txt │ ├── HOXA13_batch_01.txt │ ├── HOXD13_batch_01.txt │ ├── HTT_batch_01.txt │ ├── JPH3_batch_01.txt │ ├── LRP12_batch_01.txt │ ├── MARCHF6_batch_01.txt │ ├── MUC1_batch_01.txt │ ├── NAXE_batch_01.txt │ ├── NIPA1_batch_01.txt │ ├── NOP56_batch_01.txt │ ├── NOTCH2NLC_batch_01.txt │ ├── NUTM2B-AS1_batch_01.txt │ ├── PABPN1_batch_01.txt │ ├── PHOX2B_batch_01.txt │ ├── PLIN4_batch_01.txt │ ├── POLG_batch_01.txt │ ├── PPP2R2B_batch_01.txt │ ├── PRNP_batch_01.txt │ ├── RAI1_batch_01.txt │ ├── RAPGEF2_batch_01.txt │ ├── RFC1_batch_01.txt │ ├── RILPL1_batch_01.txt │ ├── RUNX2_batch_01.txt │ ├── SAMD12_batch_01.txt │ ├── SOX3_batch_01.txt │ ├── STARD7_batch_01.txt │ ├── TAF1_batch_01.txt │ ├── TBP_batch_01.txt │ ├── TBX1_batch_01.txt │ ├── TCF4_batch_01.txt │ ├── THAP11_batch_01.txt │ ├── TNRC6A_batch_01.txt │ ├── TYMS_batch_01.txt │ ├── VWA1_batch_01.txt │ ├── XYLT1_batch_01.txt │ ├── YEATS2_batch_01.txt │ ├── ZFHX3_batch_01.txt │ ├── ZIC2_batch_01.txt │ ├── ZIC3_batch_01.txt │ ├── ZNF713_batch_01.txt │ ├── gene_synonyms.tsv │ └── new_loci_batch_01.txt ├── plots │ ├── age-onset.json │ ├── gnomad.json │ └── path-size.json └── ref-alleles │ ├── ref-alleles.T2T-chm13.txt │ ├── ref-alleles.hg19.txt │ └── ref-alleles.hg38.txt ├── scripts ├── README.md ├── age-onset-json.py ├── check-loci.py ├── convert-coords.ipynb ├── environment.yml ├── format-schema.html ├── get-literature.R ├── gnomad-json.py ├── make-catalog.py ├── path-size-json.py ├── plots.R ├── ref-allele.py ├── run-manubot.py ├── setup-miniconda-patched-environment.yml └── validate-loci.py ├── site ├── .env ├── .gitignore ├── .prettierignore ├── .prettierrc.mjs ├── .vscode │ └── extensions.json ├── README.md ├── astro.config.mjs ├── bun.lock ├── cloud │ ├── README.md │ ├── deploy.sh │ ├── issue │ │ ├── index.js │ │ └── package.json │ └── pr │ │ ├── index.js │ │ └── package.json ├── package.json ├── public │ ├── blueprint.html │ ├── icon.png │ ├── images │ │ ├── definition.png │ │ └── team │ │ │ ├── akshay-avvaru.jpg │ │ │ ├── ben-weisburd.jpg │ │ │ ├── egor-dolzhenko.jpg │ │ │ ├── harriet-dashnow.jpg │ │ │ ├── laurel-hiatt.jpg │ │ │ ├── macayla-weiner.jpg │ │ │ └── vincent-rubinetti.jpg │ └── share.jpg ├── src │ ├── api │ │ ├── index.js │ │ ├── issue.js │ │ └── pr.js │ ├── assets │ │ ├── check.svg │ │ ├── loading.svg │ │ ├── logo.svg │ │ └── x.svg │ ├── components │ │ ├── Alert.jsx │ │ ├── Alert.module.css │ │ ├── Button.jsx │ │ ├── Button.module.css │ │ ├── CheckBox.jsx │ │ ├── CheckBox.module.css │ │ ├── Collapsible.jsx │ │ ├── Collapsible.module.css │ │ ├── ComboBox.jsx │ │ ├── ComboBox.module.css │ │ ├── Contact.module.css │ │ ├── ContactForm.jsx │ │ ├── ContactLink.jsx │ │ ├── Dialog.jsx │ │ ├── Dialog.module.css │ │ ├── Footer.astro │ │ ├── Form.jsx │ │ ├── Header.astro │ │ ├── Heading.jsx │ │ ├── Heading.module.css │ │ ├── Help.jsx │ │ ├── Help.module.css │ │ ├── LineChart.jsx │ │ ├── LineChart.module.css │ │ ├── Link.jsx │ │ ├── Link.module.css │ │ ├── NumberBox.jsx │ │ ├── NumberBox.module.css │ │ ├── PlotlyChart.jsx │ │ ├── PlotlyChart.module.css │ │ ├── Popover.jsx │ │ ├── Popover.module.css │ │ ├── RangeChart.jsx │ │ ├── RangeChart.module.css │ │ ├── SchemaForm.jsx │ │ ├── SchemaForm.module.css │ │ ├── Select.jsx │ │ ├── Select.module.css │ │ ├── ShowMoreItems.jsx │ │ ├── ShowMoreItems.module.css │ │ ├── ShowMoreLines.jsx │ │ ├── ShowMoreLines.module.css │ │ ├── Table.jsx │ │ ├── Table.module.css │ │ ├── TableOfContents.jsx │ │ ├── TableOfContents.module.css │ │ ├── TextBox.jsx │ │ ├── TextBox.module.css │ │ ├── Tooltips.astro │ │ ├── ViewCorner.jsx │ │ └── ViewCorner.module.css │ ├── data │ │ ├── derived.js │ │ ├── identifiers.js │ │ ├── inheritance.js │ │ ├── tags.js │ │ └── team.js │ ├── env.d.ts │ ├── layouts │ │ ├── Layout.astro │ │ ├── global.css │ │ └── meta.js │ ├── loci │ │ ├── Table.jsx │ │ └── Table.module.css │ ├── locus │ │ ├── AdditionalLiterature.jsx │ │ ├── Citation.jsx │ │ ├── Citation.module.css │ │ ├── Cited.jsx │ │ ├── EditForm.jsx │ │ ├── Gnomad.jsx │ │ ├── Tag.jsx │ │ └── Tag.module.css │ ├── pages │ │ ├── 404.astro │ │ ├── _resources.module.css │ │ ├── about.astro │ │ ├── index.astro │ │ ├── loci │ │ │ ├── [id].astro │ │ │ ├── [id] │ │ │ │ └── edit.astro │ │ │ ├── index.astro │ │ │ └── new │ │ │ │ └── index.astro │ │ └── resources.mdx │ └── util │ │ ├── browser.js │ │ ├── dom.js │ │ ├── download.js │ │ ├── format.jsx │ │ ├── git.js │ │ ├── hooks.js │ │ ├── math.js │ │ ├── misc.js │ │ ├── object.js │ │ └── string.js └── tsconfig.json └── workflow ├── Snakefile └── config.yaml /.github/PULL_REQUEST_TEMPLATE.md: -------------------------------------------------------------------------------- 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