From b566216b6fe8c3b62fe6e126678a0bfe80c7e18e Mon Sep 17 00:00:00 2001 From: Geert van Geest Date: Fri, 8 Apr 2022 10:12:38 +0200 Subject: [PATCH] formats json --- polls/polls.json | 665 ++++++++++++++++++++++++++++++++++++++++++++++- 1 file changed, 664 insertions(+), 1 deletion(-) diff --git a/polls/polls.json b/polls/polls.json index fec2e04..3221671 100644 --- a/polls/polls.json +++ b/polls/polls.json @@ -1 +1,664 @@ -[{"@type":"MultipleChoiceQuestion","lowerCaseAlias":"","id":"1946791","alias":"","text":"How comfortable are you with bioinformatic analyses?","image":null,"choices":[{"id":"7525398","alias":null,"text":"I had some introduction in unix and/or R/python and ready to get started!","isCorrectAnswer":false,"excludeFromResults":false,"image":null},{"id":"7525399","alias":null,"text":"I analyzed some datasets for which I used the command line","isCorrectAnswer":false,"excludeFromResults":false,"image":null},{"id":"7525400","alias":null,"text":"I regularly analyze datasets 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"MultipleChoiceQuestion", + "lowerCaseAlias": "", + "id": "1946793", + "alias": "", + "text": "In which stage of working with variant analysis are you?", + "image": null, + "choices": [ + { + "id": "7525406", + "alias": null, + "text": "I might be performing a variant analysis in the future", + "isCorrectAnswer": false, + "excludeFromResults": false, + "image": null + }, + { + "id": "7525407", + "alias": null, + "text": "I will probably perform a variant analysis in one of my current research projects", + "isCorrectAnswer": false, + "excludeFromResults": false, + "image": null + }, + { + "id": "7525408", + "alias": null, + "text": "There is a dataset waiting to be analyzed", + "isCorrectAnswer": false, + "excludeFromResults": false, + "image": null + }, + { + "id": "7525409", + "alias": null, + "text": "I already performed one or more variant analyses", + "isCorrectAnswer": false, + "excludeFromResults": false, + "image": null + } + ], + "minNumberSelections": 1, + 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And can you regenerate the reference sequence (fasta) file from the SAM file?\n", + "image": null, + "choices": [ + { + "id": "7525434", + "alias": null, + "text": "Only the fastq file", + "isCorrectAnswer": false, + "excludeFromResults": false, + "image": null + }, + { + "id": "7525435", + "alias": null, + "text": "Only the fasta file", + "isCorrectAnswer": false, + "excludeFromResults": false, + "image": null + }, + { + "id": "7525436", + "alias": null, + "text": "Both files", + "isCorrectAnswer": false, + "excludeFromResults": false, + "image": null + }, + { + "id": "7525437", + "alias": null, + "text": "None of those", + "isCorrectAnswer": false, + "excludeFromResults": false, + "image": null + } + ], + "minNumberSelections": 1, + "maxNumberSelections": 1, + "resultFormat": "%", + "distributableWeight": null, + "weightingSetting": null, + "weightingFactor": null, + "correctAnswerExplanation": null + }, + { + "@type": "MultipleChoiceQuestion", + "lowerCaseAlias": "", + "id": "1946801", + "alias": "", + "text": "Let’s say we we count 8 bases REF and 1 ALT at a locus, what would you consider the most likely genotype?\n", + "image": null, + "choices": [ + { + "id": "7525438", + "alias": null, + "text": "Homozygous REF, because by far most of the bases are REF", + "isCorrectAnswer": false, + "excludeFromResults": false, + "image": null + }, + { + "id": "7525439", + "alias": null, + "text": "Heterozygous, because having one base supporting ALT gives evidence that there is an ALT allele", + "isCorrectAnswer": false, + "excludeFromResults": false, + "image": null + } + ], + "minNumberSelections": 1, + "maxNumberSelections": 1, + "resultFormat": "%", + "distributableWeight": null, + "weightingSetting": null, + "weightingFactor": null, + "correctAnswerExplanation": null + }, + { + "@type": "MultipleChoiceQuestion", + "lowerCaseAlias": "", + "id": "1946802", + "alias": "", + "text": "What would be a command to get the number of variants in a vcf file? (the -v option will invert the match; the -c option will give the count of matches)\n", + "image": null, + "choices": [ + { + "id": "7525440", + "alias": null, + "text": "grep -v \"^#\" my.vcf | wc -l", + "isCorrectAnswer": false, + "excludeFromResults": false, + "image": null + }, + { + "id": "7525441", + "alias": null, + "text": "wc -l my.vcf | grep -c", + "isCorrectAnswer": false, + "excludeFromResults": false, + "image": null + }, + { + "id": "7525442", + "alias": null, + "text": "grep -c \"^#\" my.vcf ", + "isCorrectAnswer": false, + "excludeFromResults": false, + "image": null + }, + { + "id": "7525443", + "alias": null, + "text": "grep -c CHROM my.vcf", + "isCorrectAnswer": false, + "excludeFromResults": false, + "image": null + } + ], + "minNumberSelections": 1, + "maxNumberSelections": 1, + "resultFormat": "%", + "distributableWeight": null, + "weightingSetting": null, + "weightingFactor": null, + "correctAnswerExplanation": null + }, + { + "@type": "MultipleChoiceQuestion", + "lowerCaseAlias": "", + "id": "1946803", + "alias": "", + "text": "What would be solution for this ‘missing genotype’ problem? (answer the best solution)\n", + "image": null, + "choices": [ + { + "id": "7525444", + "alias": null, + "text": "Do a variant call on all samples in one go", + "isCorrectAnswer": false, + "excludeFromResults": false, + "image": null + }, + { + "id": "7525445", + "alias": null, + "text": "Store information on non-variant regions in the vcf", + "isCorrectAnswer": false, + "excludeFromResults": false, + "image": null + }, + { + "id": "7525446", + "alias": null, + "text": "Fill out missing values at missing genotypes", + "isCorrectAnswer": false, + "excludeFromResults": false, + "image": null + } + ], + "minNumberSelections": 1, + "maxNumberSelections": 1, + "resultFormat": "%", + "distributableWeight": null, + "weightingSetting": null, + "weightingFactor": null, + "correctAnswerExplanation": null + }, + { + "@type": "MultipleChoiceQuestion", + "lowerCaseAlias": "", + "id": "1946804", + "alias": "", + "text": "Strong filtering likely results in:\n", + "image": null, + "choices": [ + { + "id": "7525447", + "alias": null, + "text": "Higher precision – lower recall", + "isCorrectAnswer": false, + "excludeFromResults": false, + "image": null + }, + { + "id": "7525448", + "alias": null, + "text": "Lower prescion – higher recall", + "isCorrectAnswer": false, + "excludeFromResults": false, + "image": null + }, + { + "id": "7525449", + "alias": null, + "text": "Both precision and recall lower", + "isCorrectAnswer": false, + "excludeFromResults": false, + "image": null + }, + { + "id": "7525450", + "alias": null, + "text": "Both recall and precision higher", + "isCorrectAnswer": false, + "excludeFromResults": false, + "image": null + } + ], + "minNumberSelections": 1, + "maxNumberSelections": 1, + "resultFormat": "%", + "distributableWeight": null, + "weightingSetting": null, + "weightingFactor": null, + "correctAnswerExplanation": null + } +] \ No newline at end of file