29:null 2a:["$","title",null,{"children":"Practice Using the API's | Maddie Bendele | Observable"}] 2f:[] 2d:{"id":"6375925634ff2726","slug":null,"title":"Practice Using the API's","thumbnail":"4b1a7fe7f58647fd0ecc90a8754bc167ca6780a21048590e240d4d2c85252556","access_level":"public","create_time":"$D2023-10-09T09:16:09.567Z","update_time":"$D2024-01-20T14:19:21.155Z","view_time":null,"first_public_time":"$D2023-10-09T09:16:09.567Z","fork":false,"stars":0,"starred":false,"owner":{"type":"team","id":"f5a60deb983d2ac1","login":"mbendele","name":"Maddie Bendele","avatar_url":"https://avatars-next.observableusercontent.com/eda08aa21264f41360de6456790ae57ec6fa4ab04010c83e854f643516c54538","tier":"starter_2024"},"version":351,"publish_version":null,"role":null,"authored":false,"authors":[{"type":"individual","id":"24c6369a6fc83150","login":"mbendele","name":"Maddie Bendele","avatar_url":"https://avatars-next.observableusercontent.com/df056cb5c50bb95442f5984e912a3fdad13fb13fc423a0b8e54da82de553579a","tier":null}],"members":[{"type":"individual","id":"24c6369a6fc83150","login":"mbendele","name":"Maddie Bendele","avatar_url":"https://avatars-next.observableusercontent.com/df056cb5c50bb95442f5984e912a3fdad13fb13fc423a0b8e54da82de553579a","tier":null,"role":"editor"}],"comments":[{"id":"9e55a801d5895922","reply_to_id":null,"content":"How did this work before you figured out the selected phage?","create_time":"$D2023-10-09T09:36:25.565Z","update_time":null,"resolved":false,"user":{"type":"individual","id":"24c6369a6fc83150","login":"mbendele","name":"Maddie Bendele","avatar_url":"https://avatars-next.observableusercontent.com/df056cb5c50bb95442f5984e912a3fdad13fb13fc423a0b8e54da82de553579a","tier":null}},{"id":"6e952e5faefdd94a","reply_to_id":null,"content":"Having trouble calling the subcluster api","create_time":"$D2023-10-09T12:41:24.860Z","update_time":null,"resolved":false,"user":{"type":"individual","id":"24c6369a6fc83150","login":"mbendele","name":"Maddie Bendele","avatar_url":"https://avatars-next.observableusercontent.com/df056cb5c50bb95442f5984e912a3fdad13fb13fc423a0b8e54da82de553579a","tier":null}},{"id":"111610c2b8f56682","reply_to_id":null,"content":".map selectedCluster so get a specific thing you want","create_time":"$D2023-10-11T19:17:15.698Z","update_time":null,"resolved":false,"user":{"type":"individual","id":"24c6369a6fc83150","login":"mbendele","name":"Maddie Bendele","avatar_url":"https://avatars-next.observableusercontent.com/df056cb5c50bb95442f5984e912a3fdad13fb13fc423a0b8e54da82de553579a","tier":null}}],"custom_thumbnail":false,"trashed":false,"lapsed":null,"subscribed":null,"forks":0,"collection":null,"type":"notebook","body":{"title":"Practice Using the API's","cells":[{"id":0,"value":"# Practice Using the API's\n","pinned":false,"hidden":false,"mode":"md","author":"$undefined","summary":"$undefined","output":"","database":"$undefined"},{"id":15,"value":"viewof formData = {\n let formData = \"Signed In\";\n formData = formWithSubmit(html`\n \n`);\n return formData;\n}","pinned":false,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","output":"$undefined","database":"$undefined"},{"id":11,"value":"viewof dataset = Inputs.select(user.datasets.sort(), {\n label: \"Select a data set\",\n value: \"Actino_Draft\"\n})","pinned":false,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","output":"$undefined","database":"$undefined"},{"id":44,"value":"viewof selectedCluster = Inputs.select(\n clusters.map((cluster) => cluster.name),\n { label: \"Select a cluster\", value: \"D\" }\n)","pinned":false,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","output":"$undefined","database":"$undefined"},{"id":107,"value":"## **Using the Clusters API**","pinned":false,"hidden":false,"mode":"md","author":"$undefined","summary":"$undefined","output":"","database":"$undefined"},{"id":9,"value":"clusters = getPhameratorData(dataset, \"/clusters\", user.email, user.password)","pinned":false,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","output":"$undefined","database":"$undefined"},{"id":350,"value":"functions","pinned":true,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","output":"","database":"$undefined"},{"id":40,"value":"phagesByCluster = getPhameratorData(\n dataset,\n `/phagesbycluster/${selectedCluster}`,\n user.email,\n user.password\n)","pinned":false,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","output":"$undefined","database":"$undefined"},{"id":41,"value":"viewof selectedPhage = Inputs.select(\n phagesByCluster.map((phage) => phage.phagename).sort(),\n {\n label: `Cluster ${selectedCluster} phages`\n }\n)","pinned":false,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","output":"$undefined","database":"$undefined"},{"id":110,"value":"## **Using the Phamily API**","pinned":false,"hidden":false,"mode":"md","author":"$undefined","summary":"$undefined","output":"","database":"$undefined"},{"id":97,"value":"viewof selectedPham = Inputs.select(\n genesByCluster.map((gene) => gene.phamName),\n {\n label: `Cluster ${selectedCluster} phamilies`\n }\n)","pinned":true,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","output":"$undefined","database":"$undefined"},{"id":286,"value":"phageandPham = genesByCluster.map((d) => ({\n //phageID: d.phageID,\n pham: d.phamName\n}))","pinned":true,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","output":"$undefined","database":"$undefined"},{"id":149,"value":" **The frequency a phamily occurs in a cluster and colored by where it is located in the genome**","pinned":false,"hidden":false,"mode":"md","author":"$undefined","summary":"$undefined","output":"","database":"$undefined"},{"id":322,"value":"Plot.plot({\n color: { legend: true },\n width,\n marks: [\n Plot.ruleY([0]),\n Plot.dot(\n phamSelection,\n Plot.groupX(\n { y: \"count\" },\n {\n x: \"genefunction\",\n y: \"phamName\",\n fill: \"start\",\n stroke: \"black\",\n tip: true\n }\n )\n )\n ]\n})","pinned":true,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","output":"$undefined","database":"$undefined"},{"id":183,"value":"phagesbyPham = d3.group(genesByCluster, (d) => d.phamName)","pinned":true,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","output":"$undefined","database":"$undefined"},{"id":327,"value":"## What phamilies occur in which phages?","pinned":false,"hidden":false,"mode":"md","author":"$undefined","summary":"$undefined","output":"","database":"$undefined"},{"id":189,"value":"html`\n \n \n \n ${Array.from(\n phagesbyPham,\n ([key, values]) => html`\n \n \n \n `\n )}\n

phamName	PhageID
${key}	${values.map((d) => d.phageID).join(\", \")}

`","pinned":true,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","output":"$undefined","database":"$undefined"},{"id":329,"value":"## What gene function(s) does each phamily have","pinned":false,"hidden":false,"mode":"md","author":"$undefined","summary":"$undefined","output":"","database":"$undefined"},{"id":193,"value":"html`\n \n \n \n ${Array.from(\n phagesbyPham,\n ([key, values]) => html`\n \n \n \n `\n )}\n

phamName	genefunction
${key}	${values.map((d) => d.genefunction).join(\", \")}

`","pinned":true,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","output":"$undefined","database":"$undefined"},{"id":114,"value":"phamSelection = getPhameratorData(\n dataset,\n `/phamily/${selectedPham}`,\n user.email,\n user.password\n)","pinned":false,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","output":"$undefined","database":"$undefined"},{"id":135,"value":"## **Genome** ","pinned":false,"hidden":false,"mode":"md","author":"$undefined","summary":"$undefined","output":"","database":"$undefined"},{"id":56,"value":"selectedPhageGenome = getPhameratorData(\n dataset,\n `/genome/${selectedPhage}`,\n user.email,\n user.password\n)","pinned":false,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","output":"$undefined","database":"$undefined"},{"id":23,"value":"genes = getPhameratorData(dataset, `/genes/${selectedPhage}`,\n user.email,\n user.password)","pinned":false,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","output":"$undefined","database":"$undefined"},{"id":331,"value":"## Below is me trying and failing to make a multiple selection bar for phamilies based on what cluster you are in","pinned":false,"hidden":false,"mode":"md","author":"$undefined","summary":"$undefined","output":"","database":"$undefined"},{"id":234,"value":"viewof search = Inputs.search(\n genesByCluster.map((phamName) => ({ phamName: phamName })),\n { placeholder: \"search phams\" }\n)","pinned":true,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","output":"$undefined","database":"$undefined"},{"id":239,"value":"viewof rows = Inputs.table(search, {\n width: 200,\n maxHeight: 200,\n required: false\n})","pinned":true,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","output":"$undefined","database":"$undefined"},{"id":249,"value":"rows.map((r) => r.phamName)","pinned":true,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","output":"$undefined","database":"$undefined"},{"id":253,"value":"viewof phams = Inputs.select(genesByCluster, {\n multiple: true,\n label: \"Favorite colors\"\n})","pinned":true,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","output":"$undefined","database":"$undefined"},{"id":299,"value":"viewof Form = {\n const inputs = Inputs.form({\n selectedPhages: Inputs.select(phageandPham, {\n label: `Select specific phages from Cluster ${selectedCluster}`,\n format: (x) => x.phagename,\n multiple: true\n })\n });\n return inputs;\n}","pinned":true,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","output":"$undefined","database":"$undefined"},{"id":302,"value":"viewof colors = Inputs.select(phageandPham, {\n multiple: true,\n label: \"Favorite colors\"\n})","pinned":true,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","output":"$undefined","database":"$undefined"},{"id":137,"value":"## Genes","pinned":false,"hidden":false,"mode":"md","author":"$undefined","summary":"$undefined","output":"","database":"$undefined"},{"id":61,"value":"genesByCluster = getPhameratorData(\n dataset,\n `/genesbycluster/Q`,\n user.email,\n user.password\n)\n","pinned":true,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","output":"$undefined","database":"$undefined"},{"id":342,"value":"hasFunction = genesByCluster.filter((x) => {\n let dog = x.genefunction !== \"\";\n return dog;\n})","pinned":true,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","output":"$undefined","database":"$undefined"},{"id":349,"value":"","pinned":true,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","output":"$undefined","database":"$undefined"},{"id":140,"value":"## Phamilies","pinned":false,"hidden":false,"mode":"md","author":"$undefined","summary":"$undefined","output":"","database":"$undefined"},{"id":67,"value":"phamilies = getPhameratorData(dataset, \"/phamilies\", user.email, user.password)","pinned":true,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","output":"$undefined","database":"$undefined"},{"id":156,"value":"## **Using the phagesbycluster API endpoint**","pinned":false,"hidden":false,"mode":"md","author":"$undefined","summary":"$undefined","output":"","database":"$undefined"},{"id":158,"value":"phagesbycluster = getPhameratorData(\n dataset,\n `/phagesbycluster/${selectedCluster}`,\n user.email,\n user.password\n)","pinned":true,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","output":"$undefined","database":"$undefined"},{"id":162,"value":"## **Using the phagesbysubcluster API endpoint**","pinned":false,"hidden":false,"mode":"md","author":"$undefined","summary":"$undefined","output":"","database":"$undefined"},{"id":168,"value":"viewof selectedSubcluster = Inputs.select(\n phagesByCluster.map((subclust) => subclust.clusterSubcluster),\n {\n label: \"Subcluster\"\n }\n)","pinned":true,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","output":"$undefined","database":"$undefined"},{"id":164,"value":"subclusters = getPhameratorData(\n dataset,\n `/phagesbysubcluster/P1`,\n user.email,\n user.password\n)","pinned":true,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","output":"$undefined","database":"$undefined"},{"id":181,"value":"custers = getPhameratorData(dataset)","pinned":true,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","output":"$undefined","database":"$undefined"},{"id":174,"value":"## Functions api endpoint","pinned":false,"hidden":false,"mode":"md","author":"$undefined","summary":"$undefined","output":"","database":"$undefined"},{"id":172,"value":"functions = getPhameratorData(dataset, \"/functions\", user.email, user.password)","pinned":true,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","output":"$undefined","database":"$undefined"},{"id":5,"value":"import {\n terms,\n getPhameratorData,\n user,\n formWithSubmit,\n styles\n} with { formData } from \"@scresawn/phamerator-api-utilities\"","pinned":false,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","output":"$undefined","database":"$undefined"},{"id":255,"value":"import { displayCaution } from \"@mkfreeman/utilities\"","pinned":true,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","output":"$undefined","database":"$undefined"},{"id":266,"value":"import { selectOrder } from \"@cresawn-labs/reorder-a-list\"","pinned":true,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","output":"$undefined","database":"$undefined"}],"files":"$W2f","stdlib":"1","titling":"auto"}} 2e:"$2d:body"

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