Title: plot with transcripts error · Issue #190 · ryanlayer/samplot · GitHub
Open Graph Title: plot with transcripts error · Issue #190 · ryanlayer/samplot
X Title: plot with transcripts error · Issue #190 · ryanlayer/samplot
Description: I've downloaded, sorted and indexed the gff3 file from ensembl, but when I use it with samplot plot -T I get the following error: $ samplot plot -c chr14 -s 103334932 -e 103491427 -t DEL -T $db/hg38/Samplot/Homo_sapiens.GRCh38.110.sort.g...
Open Graph Description: I've downloaded, sorted and indexed the gff3 file from ensembl, but when I use it with samplot plot -T I get the following error: $ samplot plot -c chr14 -s 103334932 -e 103491427 -t DEL -T $db/hg3...
X Description: I've downloaded, sorted and indexed the gff3 file from ensembl, but when I use it with samplot plot -T I get the following error: $ samplot plot -c chr14 -s 103334932 -e 103491427 -t DEL -T $db...
Opengraph URL: https://github.com/ryanlayer/samplot/issues/190
X: @github
Domain: github.com
{"@context":"https://schema.org","@type":"DiscussionForumPosting","headline":"plot with transcripts error","articleBody":"I've downloaded, sorted and indexed the gff3 file from ensembl, but when I use it with samplot plot -T I get the following error:\r\n```\r\n$ samplot plot -c chr14 -s 103334932 -e 103491427 -t DEL -T $db/hg38/Samplot/Homo_sapiens.GRCh38.110.sort.gff3 -r $db/hg38/reference/Homo_sapiens_assembly38.fasta -o DEL00117515 -b prob_markdup.bam father_markdup.bam mother_markdup.bam -n PROB FATHER MOTHER \r\nTraceback (most recent call last):\r\n File \"~/miniconda3/envs/samplot/bin/samplot\", line 10, in \u003cmodule\u003e\r\n sys.exit(main())\r\n File \"~/miniconda3/envs/samplot/lib/python3.9/site-packages/samplot/__main__.py\", line 31, in main\r\n args.func(parser, args, extra_args)\r\n File \"~/miniconda3/envs/samplot/lib/python3.9/site-packages/samplot/samplot.py\", line 3655, in plot\r\n plot_transcript(\r\n File \"~/miniconda3/envs/samplot/lib/python3.9/site-packages/samplot/samplot.py\", line 3419, in plot_transcript\r\n transcript_plan = get_transcript_plan(ranges, transcript_file)\r\n File \"~/miniconda3/envs/samplot/lib/python3.9/site-packages/samplot/samplot.py\", line 3331, in get_transcript_plan\r\n genes[info[\"Name\"]] = [\r\nKeyError: 'Name'\r\n```\r\n","author":{"url":"https://github.com/abrusell","@type":"Person","name":"abrusell"},"datePublished":"2023-11-09T16:27:12.000Z","interactionStatistic":{"@type":"InteractionCounter","interactionType":"https://schema.org/CommentAction","userInteractionCount":2},"url":"https://github.com/190/samplot/issues/190"}
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